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UNITED STATES

SECURITIES AND EXCHANGE COMMISSION

Washington, DC 20549

FORM 10-K

FOR ANNUAL AND TRANSITION REPORTS

PURSUANT TO SECTIONS 13 OR 15(d) OF THE

SECURITIES EXCHANGE ACT OF 1934

(Mark One)

  For the fiscal year ended June 30, 2003

OR

  For the transition period from                      to                     .

Commission file number 0-25259

BOTTOMLINE TECHNOLOGIES (de), INC.

(Exact Name of Registrant as Specified in Its Charter)

Registrant’s telephone number, including area code: (603) 436-0700

Securities registered pursuant to Section 12(b) of the Act:

None

Securities registered pursuant to Section 12(g) of the Act:

Common Stock, $.001 par value per share

(Title of Class)

Indicate by check mark whether the registrant: (1) has filed all reports required to be filed by Section 13 or 15 (d) of the Securities Exchange Act of 1934 during the preceding 12 months (or for such shorter period that the registrant was required to file such reports), and (2) has been subject to such filing requirements for the past 90 days.  Yes  x  No  ¨

Indicate by check mark if disclosure of delinquent filers pursuant to Item 405 of Regulation S-K is not contained herein, and will not be contained, to the best of registrant’s knowledge, in definitive proxy or information statements incorporated by reference in Part III of this Form 10-K or any amendment to this Form 10-K.  ¨

Indicate by check mark whether the registrant is an accelerated filer (as defined in Exchange Act Rule 12b-2).  Yes  ¨  No  x

The aggregate market value of the voting stock held by non-affiliates of the registrant, based on the last sale price of the registrant’s common stock at the close of business on December 31, 2002 was $61,219,090 (reference is made to Part II, Item 5 herein for a statement of assumptions upon which this calculation is based). The Company has no non-voting stock.

There were 15,960,297 shares of common stock, $.001 par value per share, of the registrant outstanding as of September 10, 2003.

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DOCUMENTS INCORPORATED BY REFERENCE

Items 10, 11, 12 and 13 of Part III (except for information required with respect to our executive officers, which is set forth under “Part I—Business—Executive Officers and Other Key Employees of the Registrant”) have been omitted from this report, as we expect to file with the Securities and Exchange Commission, not later than 120 days after the close of our fiscal year ended June 30, 2003, a definitive proxy statement for our annual meeting of stockholders. The information required by Items 10, 11, 12 and 13 of Part III of this report, which will appear in our definitive proxy statement, is incorporated by reference into this report.

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PART I

This annual report on Form 10-K contains forward-looking statements that involve risks and uncertainties. Any statements (including statements to the effect that we “believe,” “expect,” “anticipate,” “plan” and similar expressions) that are not statements relating to historical matters should be considered forward-looking statements. Our actual results may differ materially from the results discussed in the forward-looking statements as a result of numerous important factors, including those discussed in “Management’s Discussion and Analysis of Financial Condition and Results of Operations—Certain Factors that May Affect Future Results.”

Item 1.    Business.

The Company

We provide a comprehensive set of solutions for financial resource management (FRM). Our software products and services enable organizations to more effectively make and collect payments, send and receive invoices and conduct electronic banking. We offer both software designed to run on-site at the customer’s location as well as hosted solutions. Our products allow our customers to leverage the Internet in automating existing operations while increasing security and fraud avoidance. By enhancing, improving and streamlining a customer’s overall financial resource management capabilities, our products complement our customers’ existing information systems, accounting applications and banking functions. As a result, our solutions can be deployed quickly and efficiently. To help our customers receive the maximum value from our products and meet their own particular needs, we also provide professional services for installation, training, consulting and product enhancement. Additionally, we offer our customers a broad range of equipment and supplies products that complement their laser check printing products.

We market our products globally with a particular focus on the United States and, through our Bottomline Europe group, the United Kingdom. We have over 5,500 customers, including approximately 50 of the Fortune 100 and 90 of the FTSE (Financial Times Stock Exchange) 100 companies.

Bottomline was originally organized as a New Hampshire corporation in 1989 and was reincorporated as a Delaware Corporation in August 1997.

Strategy

Our objective is to be the leading global provider of FRM software solutions and services. Key elements of our strategy include the following:

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Applications

Our FRM applications include:

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Corporate Payments

We offer both a web-based and client server payment and reporting system capable of producing a wide variety of domestic and international payment instructions along with consolidated bank reporting of cash activity. Our web-based payments and reporting package can be accessed from a standard web browser allowing authorized users to create payments, view data or initiate reports from anywhere in the organization. We support numerous payment types, including ACH, Financial EDI, Fed Wire transfer, UK BACS, and SWIFT messaging and paper checks in most currencies. Reduced administrative expenses as well as increased control and fraud protection are among the benefits provided through the use of these products. Payment and bank account information, including account totals and detailed transaction data, can be gathered by the web-based system and accessed via the Internet, providing improved workflow, financial reporting and bank communications.

Invoice Presentment and Invoice Receipt Management

We offer a web based invoice processing system for businesses that can be deployed as both a payer side and a biller side solution. Each of these products reduces the administrative cost of invoice processing by allowing organizations to electronically send or receive and manage invoices. Our biller side product, electronic invoice presentment and payment (EIPP), is a secure, business-to-business system that allows organizations to present invoices and invoicing information, accommodate internal workflows for review and approval, provide online dispute resolution and accept payments over the Internet. Our legal e-billing product automates the receipt, reconciliation, review, approval and management of legal invoices. The legal e-billing system incorporates a rules engine, helping to ensure that charges are in conformity with preset billing parameters. We also offer a payer side solution, Invoice Receipt Management (IRM), which aggregates, formats and transfers invoice data into the customers accounts payable and accounting system electronically. For vendors unable to provide files electronically, there is a browser-accessed manual payment request screen that creates “electronic invoices” on demand.

Electronic Banking

Our electronic banking solution allows financial service providers to deploy Internet based services. The software interfaces directly to a multitude of in-house systems to provide seamless application integration across one or more financial institutions. A variety of cash management functions, including balance and transaction reporting, lockbox reporting, controlled disbursements, positive pay, check imaging, stop payments, and a broad array of electronic funds transfer instruction are supported. Real-time host links enable the financial institution to provide its corporate customer with up-to-the-minute access to critical data.

Products and Services

Our Financial Resource Management (FRM) offerings enable businesses and financial institutions to leverage the Internet to manage their critical financial transactions, cash decisions, and trading partner financial relationships. Our software products enable enterprises to control, manage and issue all payments, whether paper-based or electronic, to electronically present bills to their customers, for customers to receive and manage invoices electronically, and to access electronic banking functions. We also offer complementary add-on functionality software for our payment products that customers can select according to their specific needs, as well as hardware and supplies to complement our software product offerings. Our software products are further enhanced by an experienced and integrated consulting service and support system. These consultants help customers to plan, design, implement and manage an organization’s transition from paper-based to electronic invoicing and payments to enhance operational productivity and customer satisfaction.

PayBase

PayBase is a client/server, multi-payment platform that provides a single software solution to control, manage, and issue all payments across an entire enterprise. It allows organizations to migrate from paper-based to electronic payments as their needs require and at their own pace. PayBase is deployed across an organization’s

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wide area network and controlled from a centrally managed data center. A single payment file can issue paper or electronic payments. PayBase can also store and retrieve electronic images of documents and provide automatic e-mail delivery of remittance advice both internally and to third parties such as vendors, customers and employees. PayBase incorporates administration software that maintains central payment information that can be accessed from a client on the network by authorized users to approve payments and review payment status. PayBase also allows users to automatically send a digital file of all checks issued to their bank for use with a “Positive Pay” system that determines when the check is presented to the bank and whether a bank customer has in fact issued it.

Our PayBase product offers customers a variety of benefits, including:

WebSeries Payments and Cash Management

WebSeries is a multi-payment, multi-currency platform that enables organizations to leverage the Internet to connect disbursement, collection and cash management needs across an enterprise, including payment requests from and delivery to point-of-need. The browser-accessed product gathers bank account information, including account totals and detailed transaction data, providing the treasury function a view into liabilities and assets before releasing payments. A consolidated payments and reporting engine improves workflow and unites financial reporting, bank communications and payments. WebSeries can issue paper and electronic payments from a single payment file. Completing the full complement of payments instructions, WebSeries also supports Financial EDI, SWIFT and Fedwire messaging. WebSeries allows users to automatically send a digital file of all checks issued to their bank for use with a “Positive Pay” system that determines when the check is presented to the bank and whether a bank customer has in fact issued it. WebSeries can also store and retrieve electronic images of printed documents from financial applications as well as provide automatic e-mail delivery of remittance advice both internally and to third parties such as vendors, customers and employees. To help organizations comply with OFAC (The Office of Foreign Asset Control) laws and regulations, WebSeries provides the ability to automatically verify all outgoing and incoming payment transactions. The WebSeries reporting engine provides balance and transaction activity against multi-bank, multi-account views uniting financial reporting across all lines of business into a single point-of-access. WebSeries incorporates administration software that maintains central payment information that can be accessed on the Internet or over an intranet by authorized users to approve payments, review payment status and correct data as appropriate.

Our WebSeries product offers customers the following benefits:

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NetTransact

NetTransact is a secure, interactive system that allows companies to present and receive billing information and originate payments for transactions over the Internet, that can be deployed as a hosted or software offering. NetTransact supports corporate billing applications through features that are designed to meet the specific needs of the business-to-business environment. The NetTransact product is primarily targeted at billers, and the product integrates with billers’ and payers’ existing receivables and payables management processes to provide trading partners with opportunities to communicate online before funds are transferred. Payers have the ability to review invoices, modify them if necessary, approve them for payment and schedule the date of funds transfer to take advantage of payment discount terms. Billers have online ability to respond to payer originated disputes or adjustments and to gain access to cash forecasting reports summarizing the pending payment transactions scheduled by payers.

Our NetTransact product provides a pathway for organizations to move from paper-based to electronic invoicing and payments and provides benefit to both billers and payers, including:

WebSeries Invoice Receipt and Management

WebSeries Invoice Receipt and Management is a payer-centric product designed to help accounts payable organizations normalize the exchange of invoice data electronically between their vendors and their internal systems. The browser-based platform provides payers with electronic workflow, streamlining the process and eliminating the need to circulate paper throughout the organization. User defined business rules can automatically filter or match invoices, providing hands-free processing. Using the vendor-self help module of IRM, payers can provide their trading partners a view into the status of invoices, payments against those invoices, as well as invoices that require exception processing.

Receiving invoices electronically provides a number of benefits to an organization, including:

WebSeries Electronic Banking

WebSeries Electronic Banking allows banks to provide their corporate and institutional customers with electronic banking functions such as cash management, trade finance and custody services using the WebSeries browser-based platform. WebSeries Electronic Banking acts as an intermediary software solution that integrates with a bank’s legacy systems to enable electronic banking services to their customers without the bank having to incur the expense of rewriting the existing code and applications for their back-office functions. Additionally, banks reduce costs and resources associated with implementing and supporting hardware/software interfaces for their corporate and institutional customers. In reducing these costs, banks also have the potential to extend their electronic banking services to additional customers that were previously restricted by the costs associated with installation and maintenance.

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Benefits of WebSeries Electronic Banking include:

WebSeries Legal e-Billing

WebSeries Legal e-Billing is a web-based system that allows a corporate legal department to electronically receive, reconcile, review, approve and manage the invoices they receive from their outside law firms. It includes a sophisticated rules engine, secure online billing and communication, interactive invoice validation and approval, and advanced account management capabilities. WebSeries Legal e-Billing reduces the costs and delays associated with paper-based billing and enables better review and information management than a manual, paper-based process.

Our WebSeries Legal e-Billing product offers the following benefits:

Transactional Services

Under Transactional Services we offer customers various services and hosted solutions that provide them with the opportunity to outsource elements of their financial operation to reduce cost and improve cash flow. The key services are:

SmARt Cash

SmARt Cash is a software product that improves the efficiency of accounts receivables transactions by automating the process of matching cash receipt and remittance information to open invoices. SmARt Cash interfaces with the lockbox services of banks and receives a variety of source data, which is processed to match more accurately with the open invoices of the customer. In this manner, the SmARt Cash software helps to automate the cash application process for accounts receivables and reduces the clerical function of data entry and the errors associated with a manual process. Our SmARt Cash product is available to both banks and corporate customers.

Professional Services

Our team of service professionals draws on extensive experience in financial transactions and e-commerce to provide consulting, project implementation and training services to our clients. Consulting service professionals are available to review clients’ current payment, invoicing and cash management methods and processes, report findings and recommend changes and solutions. Project implementation professionals are available to coordinate system installation, including billing and payment design, reporting format and delivery, bank data and communication requirements, signature and authority set up and security, audit and control

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procedures. We offer training services to all customer personnel involved in the billing and payment cycle, including management, users and information technology personnel involved in the transition from paper-based methods to electronic methods.

Equipment and Supplies

We offer consumable products needed for laser check printing, including magnetic ink character recognition toner and blank-paper check stock. We also provide printers and printer-related equipment, primarily through arrangements with our hardware vendors, to enhance our software product offerings. We have reseller agreements with two of the leading secure magnetic ink character recognition printer manufacturers in the US, Troy Systems, which primarily uses Hewlett Packard printers, and Source Technology, which primarily uses Lexmark printers.

Technology

Our technology focus is on the industry standards for the Internet and client server platforms. We develop our products to integrate with our customers’ existing technology infrastructure. We also focus on connecting the internal workflow of an enterprise to improve process efficiency. By connecting the different enterprise systems and replacing paper with electronic workflow, an organization can streamline activities and provide better process management. Security, control and fraud prevention as well as data management and information reporting are also priorities in the technology we develop and deploy.

The technology behind our primary product offerings is as follows:

WebSeries—WebSeries is a disbursements, collections and funds transfer system, supporting checks in 45 countries, electronic funds transfer—ACH, FED Wire and SWIFT, with complementary applications such as Balance and Transaction Reporting, OFAC and Invoice Receipt and Management. The WebSeries core technology code has no application-specific logic; it is a library of generic business functions that can be deployed as a platform upon which individual application modules can reside. This allows the core technology to be used across a wide variety of organization-types, with function specificity determined in the application layer.

WebSeries has three server components, each of which can be independently scaled. The Web front-end servers reside within a DMZ (DMZ is an idiom that describes a network zone normally set up for Web servers between a firewall blocking the Internet and a firewall protecting the internal network.) The Web Servers are an independently scalable collective that can be modified for the required number of simultaneous users. These servers can reside in separate physical locations as well, with the Web Servers and Business Objects residing on separate machines with another firewall between them.

WebSeries is an OLTP (On-Line Transaction Processing) system. The WebSeries platform currently supports native MS SQL Server7 and MS SQL 2000 and Oracle 8i and Oracle 9i, with support for other relational databases planned for future versions. WebSeries is a platform allowing rapid development of screens, reports and data integrations. Reports can be configured to point to other databases for their content. The Database Servers are independently tuned to handle the required transaction traffic and volume.

The Hub Servers, which support reformatting and middleware functions are configured to meet our customers’ service level requirements with respect to data availability and straight-through-processing rates. For example, since all processes are fully threaded, they can either be scaled up (larger machine) or scaled out (more machines). Included with the Hub Servers can be PayBase32 to handle the direct processing of check payments. The Hub Servers are cross-platform, and are supported on both Microsoft NT/Windows 2000 and UNIX.

The Web Servers run under both the Microsoft DNA and J2EE architectures. For the Microsoft version, the Web Servers run exclusively on Microsoft NT/Windows 2000. The software provides multi-server and multi-threaded scalability to allow unlimited concurrent user access. An integrated report writer provides an

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environment where the client reports and file download formats can be customized, and the Bottomline application framework allows for integration of new products, modules, and transaction types in a cost-effective manner.

The J2EE version of the Web Servers runs on any hardware that supports a Java environment. The software is configurable to support small, division-centric implementations as well as large, enterprise-level implementations. By scaling the hardware, unlimited concurrent user access can be achieved. The built-in report writer provides reporting capabilities which allow client reports to be displayed on the browser, and downloaded to client machines in various formats.

PayBase 32—PayBase32, our 32-bit payment processing software, has been designed using a client/server architecture. The server platform supports open database connectivity compliant with Unix and Windows NT databases. The server platform is the warehouse for information relating to the customer’s payment solution, including security tables, application form parameters and audit tables. The client workstation houses the PayBase executable programs. This design enables PayBase to be scaleable for both distributed and high volume centralized check printing, as well as electronic payment origination. The client workstation interacts with the database to ascertain authority, to retrieve information to create the form and to update the audit tables with transaction information and payment result information. Print output can be sent to any addressable network printer. The Electronically Sent Payments and Check Fraud Avoidance modules are bundled with communication software that allows scripting of the data transmission. Transmission can be executed from any client workstation.

PayBase is designed to be network independent and can be implemented in leading network architectures, including Novell, Windows NT and TCP/IP (Transmission Control Protocol / Internet Protocol). The product design creates predictable low volume network traffic in order to minimize the implementation concerns of organizations (for corporate information technology). Installation of the product is highly automated using InstallShield.

PayBase development methods conform to the latest Microsoft development specifications, including extensive use of MFC (Microsoft Foundation Classes) and the DCOM/COM ((Distributed) Component Object Model) standards. Components are designed as OLE (Object Linking and Embedding) Automation Servers for ease of future development and enhancement as well as interoperability. Web enabled components of PayBase are written as ActiveX controls. The primary development tool is Visual C++.

WebSeries Electronic Banking—Our WebSeries electronic banking product provides web-enabled information reporting and transaction initiation, supporting a bank’s cash management, trade finance and custody business. The information reporting modules can receive information from multiple back-office processing systems and consolidate the information to be reported with up to eight levels of sub reporting. The transaction initiation module allows the bank to present customized instruction screens that replicate functions and features normally reserved for a workstation environment.

The WebSeries platform is made up of three main components: Web servers, database servers and hub servers. The Web servers are independently scalable and can be expanded for a high volume of simultaneous users. The database servers are based on industry standards such as Microsoft and Oracle servers and they are also independently scalable to service the required transaction traffic and volume. The hub servers support data reformatting and interface functions and are also scalable in order to be configured to meet the service level requirements that are committed to clients in terms of data availability and processing rates.

For security, WebSeries provides Secure Socket Layer 3 and 128-bit encryption. To meet our customer security requirements, WebSeries can integrate under enterprise single sign-on portals as well as utilize third party software for user authentication and digital signatures. WebSeries also provides application level security through an administrative tool that allocates access levels for users along with types of information available to users.

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Legal e-Billing—Legal e-Billing consists of three major components: 1) the Enterprise Web application; 2) the Vendor Web application and 3) the Data Center.

The Enterprise Web Application is used by corporate legal departments to review and route invoices. The Enterprise Web application runs on a Domino web server and accesses the DB2 backend database using the Lotus DB2 connector. The enterprise Web server interfaces with client’s backend systems via a data transport of encrypted files. The security architecture is based on security protocols that support firewalls, Secure Socket Layer, HTTPS and digital certificates.

The Vendor Web Application is used by law firm staff to upload files to corporate legal departments. The Vendor Web application is built on a J2EE architecture consisting of an Apache Web Server and Tomcat as the application server. Like the Enterprise web application, the Vendor web application is web-based and accessible via a standard browser using a username and password.

The Data Center is a network hub that incorporates a secure network service and operations center and consists of multiple Windows NT servers and IBM/AIX RS6000’s. The data center is built off of Domino Notes servers and accesses the DB2 backend database using the Lotus DB2 connector.

Transaction Services—Bottomline provides a managed outsource infrastructure in a secure, high-availability data center. The hardware infrastructure consists of a series of UNIX and Microsoft Windows machines, Load Balancing to provide scalability and reliability, and firewalls to secure against intrusion.

NetTransact—NetTransact, our web-based invoice presentment and payment system, converts an organization’s existing billing file through proprietary mapping tools into a file that is accessible over the Internet. The server platform for NetTransact is based on Sun Enterprise architecture. For cross platform capabilities, it is written using the Internet-standard Java programming language in conjunction with iPlanet Application Server. The data for NetTransact is stored using database servers such as Oracle 8i. Database connectivity within the system is accomplished through the use of JDBC (java database connectivity). The security architecture for NetTransact is based on sophisticated security protocols that support firewalls, Secure Socket Layer, HTTPS (hyper text transfer protocol secure) and digital certificates.

SmARt Cash—SmARt Cash is a web-based, multi-tier, ultra-thin client which uses an application server, relational database, and Netscape or Microsoft web server. The application is written in Java, and uses object-oriented and relational database technology. The primary elements of the application are server based and can reside on hardware running Microsoft Windows or UNIX. The product can be deployed in an intranet, extranet, or Internet applications.

Product Development and Engineering

Our product development and engineering organization included 103 persons as of June 30, 2003. There are three primary development groups: software engineering, quality assurance and technical support. We spent $13.4 million, $13.8 million, and $12.1 million on product development and engineering costs in fiscal years 2001, 2002 and 2003, respectively.

Our software engineers have substantial experience in advanced software development techniques as well as extensive knowledge of the complex processes involved in business payment and invoicing systems. Our engineers participate in the Microsoft Developer Network, Sun and Oracle developer programs and maintain extensive knowledge of software development trends.

Our quality assurance engineers have both extensive knowledge of our products and expertise in software quality assurance techniques. Members of the quality assurance group make use of automated software testing tools to facilitate comprehensive and timely testing of products. The quality assurance group members participate in beta releases, including tests of new products or enhancements, and provide initial training materials for customer support and service.

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Our technical support group provides all product documentation as well as technical support for released products. The technical writers are versed in current document technology and work closely with the software engineers to create and maintain documentation that is clear, current and complete. The technical support engineers are responsible for the analysis of reported software problems and work closely with customers and customer support staff. The group’s broad knowledge of our products, operating systems, communications, and printers allows them to rapidly respond to software configuration needs.

Financial Information About Geographic Areas

Based on the point of sale, rather than customer location, net sales to unaffiliated customers were $41.0 million in the United States and $30.3 million in the United Kingdom for the fiscal year ended June 30, 2003. Net sales to unaffiliated customers were $45.5 million in the United States and $28.5 million in the United Kingdom for the fiscal year ended June 30, 2002. Net sales to unaffiliated customers were $51.2 million in the United States and $26.5 million in the United Kingdom for the fiscal year ended June 30, 2001.

At June 30, 2003, long-lived assets of $15.7 million and $14.4 million were located in the United States and the United Kingdom, respectively. At June 30, 2002, long-lived assets of $18.5 million and $33.7 million were located in the United States and the United Kingdom, respectively.

Customers

Our customer base, at over 5,500 companies, is in industries such as financial services, health care, technology, communications, education, media, manufacturing and government. We provide our products and services to leading organizations across this array of industries which currently include approximately 50 of the Fortune 100 companies and 90 of the FTSE (Financial Times) 100 companies.

Sales and Marketing

Sales

As of June 30, 2003, we employed 64 sales executives worldwide, of which 38 were focused on domestic markets and 26 were focused on European markets. In addition to our direct selling efforts, we promote our products and services through strategic relationships with our channel partners.

Marketing

We promote products and services through conferences, seminars, direct marketing and trade publications. We leverage our resellers’ and channel partners’ marketing efforts to reach a larger customer audience. We maintain memberships in industry organizations such as Financial Services Technology Consortium, Microsoft Value Chain Initiative, American Bankers Association and various operating committees of NACHA—The Electronic Payments Association, the European Banking Association (EBA), SWIFT and BACS-Limited. In addition, we participate in industry conferences such as the Association for Financial Professionals, NACHA—The Electronic Payments Association, Payments, American Payroll Congress and National User Conferences of Software Partners. We also promote brand awareness through our public relations program and by advertising in respected buying guides.

Competition

We encounter competition from various sources for each of our products.

For payments and cash management, we compete primarily with companies that provide a broad offering of electronic data interchange products, companies that provide a broad spectrum of electronic payments solutions, such as CheckFree, and companies that offer laser check printing software and services, such as Payformance,

FiWare, MHC Associates, Optio Software, ACOM Solutions and IPS of Boston in the US, and Kalamazoo,

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Microgen, Albany and PCF in the UK. To a lesser extent, we compete with providers of enterprise resource planning solutions and providers of traditional payment products, including check stock and check printing software and services. In addition, some financial institutions operate as outsourced providers of check printing and electronic payment services for their customers.

For electronic banking, we primarily compete with companies, such as S1, that offer a wide range of financial services, including electronic banking applications. We also encounter competition from companies that provide traditional treasury workstation solutions. These companies include Metavante, SunGard, Magnet Communications and Politzer and Haney.

The primary competitors we face in the invoicing market are BCE Emergis and eOne Global, through its subsidiary Velosant. We also, to a lesser extent, compete with CheckFree, e-Docs, Avolent, Xign, Pitney Bowes and Metavante. In the legal billing market, we compete with a number of companies, most of whom are privately owned, including DataCert, CT Corporation, Visibillity and Allegiant Systems.

Our transactional services offerings have encountered competition in the US from suppliers like Moore and in Europe from banks.

For all of our products, we believe we compete on a number of factors, including:

Although a number of our competitors may be better positioned to compete in certain aspects of the payments industry, we believe that our market position is enhanced by:

Although we believe that we compete favorably in our industry, the markets for payment management, electronic bill presentment, legal bill management and electronic banking software are intensely competitive and characterized by rapid technological change and a number of factors could adversely affect our ability to compete in the future, including those discussed in “Management’s Discussion and Analysis of Financial Conditions and Results of Operations—Certain Factors that May affect Future Results”.

Backlog

At the end of fiscal year 2003, our backlog was $25.0 million, including deferred revenues of $13.7 million. At the end of fiscal year 2002, our backlog was $22.4 million, including deferred revenues of $13.5 million. We do not believe that backlog is a meaningful indicator of sales that can be expected for any period, and there can be no assurance that backlog at any point in time will translate into revenue in any subsequent period.

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Proprietary Rights

We rely upon a combination of patents, copyrights, trademarks and trade-secret laws to establish and maintain proprietary rights in our technology and products. We have filed 37 patent applications relating to our products as of June 30, 2003. We have been awarded two patents which expire in July 2015 and expect to receive others. We intend to continue to file patent applications as we develop new technologies.

There can be no assurance, however, that our existing patent applications, or any others that may be filed in the future, will issue or will be of sufficient scope and strength to provide meaningful protection of our technology or any commercial advantage to us, or that the issued patents will not be challenged, invalidated or circumvented. In addition, we rely upon a combination of copyright and trademark laws and non-disclosure and other intellectual property contractual arrangements to protect our proprietary rights. Given the rapidly changing nature of the industry’s technology, the creative ability of our development, engineering, programming, marketing and service personnel may be as or more important to our competitive position as the legal protections and rights afforded by patents. We also enter into agreements with our employees and clients that seek to limit and protect the distribution of proprietary information. There can be no assurance that the steps we have taken to protect our intellectual property, however, will be adequate to deter misappropriation of proprietary information, and we may not be able to detect unauthorized use and take appropriate steps to enforce our proprietary rights.

Government Regulation

Although our operations have not been subject to any material industry-specific governmental regulation, some of our existing and potential customers are subject to extensive federal and state governmental regulations. In addition, governmental regulation in the financial services industry is evolving, particularly with respect to payment technology, and our customers may become subject to increased regulation in the future. Accordingly, our products and services must be designed to work within the regulatory constraints under which our customers operate.

Executive Officers and Other Key Employees of the Registrant

Our executive officers and other key employees and their respective ages as of September 16, 2003, are as follows:

Joseph L. Mullen has served as a director since July 1996 and Chief Executive Officer since August 2002. Mr. Mullen has served as President since September 2000. From September 2000 to April 2001, Mr. Mullen also served as Chief Operating Officer. From July 1996 to September 2000, Mr. Mullen served as Executive Vice

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President of Operations, and from July 1991 to July 1996, he served as Vice President of Sales and Marketing. From 1977 to 1989, Mr. Mullen held a variety of positions at IBM Corporation, including Marketing Manager and Northeast Area Market Planning Manager.

Robert A. Eberle has served as a director since September 2000. Since April 2001, Mr. Eberle has served as Chief Operating Officer. Mr. Eberle has also served as Chief Financial Officer since September 1998. From September 1998 to May 2001, Mr. Eberle also served as Treasurer. From December 1996 to September 1998, Mr. Eberle served as Executive Vice President of Telxon Corporation, a mobile computing and wireless data company, with primary responsibility for its Technical Subsidiaries Group. From August 1993 to December 1996, Mr. Eberle held a variety of positions at Telxon Corporation and its subsidiary, Itronix Corporation.

Peter S. Fortune has served as President of Bottomline Europe since we acquired the predecessor company in August 2000. From May 1993 to August 2000, Mr. Fortune served as Executive Director of Checkpoint Security Services Limited and from March 1999 to August 2000, Mr. Fortune served as Chief Executive Officer of Checkpoint Holdings. From January 1990 to March 1999, Mr. Fortune held a variety of positions at Checkpoint, including Managing Director for Security Print and Outsourced Services, General Manager of Security Print Operations and Head of Product Management. Prior to January 1990, Mr. Fortune held various positions at Unisys Corporation, including Director of Customer Services for U.K. Printing Operations.

Christopher J. Bishop has served as Executive Vice President and General Manager, Payment Solutions North America since July 2003. From May 2002 through June 2003, Mr. Bishop served as Executive Vice President of Sales and Marketing, North America. From February 2002 to May 2002 Mr. Bishop served as Vice President, Revenue Programs. From November 2000 to February 2002, Mr. Bishop served as Senior Vice President of iMcKesson, the e-health division of McKesson, Inc. From April 1997 to November 2000, Mr. Bishop held several positions with InterQual Products Group, a division of McKesson, including Senior Vice President, General Manager, and Vice President, Sales, Marketing, and Business Development. Prior to April 1997, Mr. Bishop held a variety of positions with emerging technology companies, including thirteen years at Versyss, Inc.

Kevin M. Donovan has served as Treasurer since May 2001. Mr. Donovan has also served as Vice President, Finance since January 2000. From February 1999 through December 2000, Mr. Donovan served as Corporate Controller. From September 1993 to February 1999, Mr. Donovan held several positions at Ernst & Young LLP, most recently as Audit Manager.

Paul J. Fannon has served as Managing Director, Payment Solutions Europe since July 2003. From December 2001 through June 2003 Mr. Fannon served as Managing Director, Payment Solutions for Bottomline Europe. From August 2000, the date we acquired the predecessor company, to December 2001, Mr. Fannon served as Client Services Director of Bottomline Europe. From November 1999 through August 2000, Mr. Fannon served as Client Services Director of Checkpoint Security Services Limited. From January 1998 to November 1999, Mr. Fannon served as Director of Outsourcing Services for Checkpoint Security Services Limited. Prior to January 1998, Mr. Fannon held a number of management positions with Checkpoint since joining the company in 1995. Prior to joining Checkpoint, Mr. Fannon held various positions within National Westminster Bank plc.

Thomas D. Gaillard has served as Vice President and General Manager, Transaction Services North America since July 2003. From May 2002 to June 2003, Mr. Gaillard served as Vice President, Corporate Development. From December 2001 to May 2002, Mr. Gaillard served as Chief Operating Officer of eVelocity Corporation, a provider of legal electronic invoicing solutions. From November 1999 to June 2001, Mr. Gaillard served as Chief Financial Officer for Newmarket International, a software company. From January 1992 to November 2001, Mr. Gaillard held a variety of senior management positions at NovaNET Learning, Inc.

Craig A. Jones has served as Vice President and General Manager, Banking and Finance North America since July 2003. From July 2002 to June 2003, Mr. Jones served as Vice President of Product Management. From

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September 1999 to July 2002 he served as Vice President of Marketing. From October 1997 to September 1999, Mr. Jones served as Vice President of Product Management at GTE CyberTrust, an Internet based security division of GTE. Prior to October 1997, Mr. Jones held a variety of positions with emerging technology companies including Avid Technologies.

Christopher W. Peck has served as Managing Director, Group Sales Europe since July 2003. From August 2000, the date we acquired the predecessor company, through June 2003, Mr. Peck served as Group Sales Director of Bottomline Europe. From March 1994 to August 2000, Mr. Peck served as Group Sales Director of Checkpoint Security Services Limited and from March 1999 to August 2000, Mr. Peck served in the same capacity for Checkpoint Holdings. From March 1987 to March 1999 Mr. Peck held a variety of positions at Checkpoint, including National Sales Manager with responsibility for Sales and Marketing. Prior to March 1987 Mr. Peck held various positions for Johnson Matthey and James Capel Stockbrokers.

Nigel K. Savory has served as Managing Director, Transaction Services Europe since July 2003. From December 2001 through June 2003, Mr. Savory served as the Managing Director of Bottomline Europe’s Transaction Services group. From August 2000, the date we acquired the predecessor company, through December 2001, Mr. Savory served as the European Business Development Director of Bottomline Europe. From January 1998 through August 2000, Mr. Savory served as the European Business Development Director of Checkpoint Security Services Limited. From December 1995 to January 1998, Mr. Savory held a variety of senior management positions with Checkpoint Security Services Limited. Prior to December 1995 Mr. Savory held various senior positions at the Bowater Group of companies, including Sales and General Manager for the UK Security Printing operations.

Employees

As of June 30, 2003, we had a total of 389 employees. None of our employees are represented by a labor union. We have not experienced any work stoppages and we consider relations with our employees to be good.

Item 2.    Properties.

We currently lease approximately 65,000 square feet of office space at our corporate headquarters in Portsmouth, New Hampshire under a lease that expires in 2012. We also occupy leased domestic offices in San Francisco, California and Great Neck, New York.

We own approximately 16,000 square feet of office space in Reading, England and occupy leased international office space in Reading, London, and Manchester, England; and Belfast, Ireland.

Item 3.    Legal Proceedings.

On August 10, 2001, a class action complaint was filed against us in the United States District Court for the Southern District of New York: Paul Cyrek v. Bottomline Technologies, Inc.; Daniel M. McGurl; Robert A. Eberle; FleetBoston Robertson Stephens, Inc.; Deutsche Banc Alex Brown Inc.; CIBC World Markets; and J.P. Morgan Chase & Co. A consolidated amended class action complaint, In re Bottomline Technologies Inc. Initial Public Offering Securities Litigation, was filed on April 20, 2002. The amended complaint supersedes the class action complaint filed against us in the United States District Court for the Southern District of New York on August 10, 2001.

The amended complaint filed in the action asserts claims under Sections 11, 12(2) and 15 of the Securities Act of 1933, as amended, and Sections 10(b) and 20(a) of the Securities Exchange Act of 1934, as amended. The amended complaint asserts, among other things, that the description in our prospectus for our initial public offering was materially false and misleading in describing the compensation to be earned by the underwriters of our offering, and in not describing certain alleged arrangements among underwriters and initial purchasers of our

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common stock from the underwriters. The amended complaint seeks damages (or, in the alternative, tender of the plaintiffs’ and the class’s Bottomline common stock and rescission of their purchases of our common stock purchased in the initial public offering), costs, attorneys’ fees, experts’ fees and other expenses.

In July 2002, Bottomline, Daniel M. McGurl and Robert A. Eberle joined in an omnibus motion to dismiss, which challenged the legal sufficiency of plaintiffs’ claims. The motion was filed on behalf of hundreds of issuer and individual defendants named in similar lawsuits. Plaintiffs opposed the motion, and the court heard oral argument on the motion in early November 2002. On February 19, 2003, the court issued an order denying the motion to dismiss as to Bottomline. In addition, in early October 2002, Daniel M. McGurl and Robert A. Eberle were dismissed from this case without prejudice. A special litigation committee of the board of directors of Bottomline has authorized Bottomline to negotiate a settlement of the pending claims substantially consistent with a memorandum of understanding negotiated among class plaintiffs, all issuer defendants and their insurers. Any such settlement would be subject to approval by the court. If the settlement is not approved, we intend to vigorously defend ourselves against this amended complaint. We do not currently believe that the outcome of this proceeding will have a material adverse impact on our financial condition.

Item 4.    Submission of Matters to a Vote of Security Holders.

No matter was submitted to a vote of our stockholders, through the solicitation of proxies or otherwise, during the fourth quarter of fiscal year 2003.

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PART II

Item 5.    Market for the Registrant’s Common Stock and Related Stockholder Matters.

Our common stock is traded on The NASDAQ National Market under the symbol EPAY. The following table sets forth, for the periods indicated, the high and low sale prices of our common stock, as quoted on The NASDAQ National Market.

As of September 10, 2003, there were approximately 347 holders of record of our common stock. Because many of the shares are held by brokers and other institutions on behalf of stockholders, we are unable to estimate the total number of individual stockholders represented by these holders of record.

The closing price for our common stock on September 10, 2003 was $7.40. For purposes of calculating the aggregate market value of the shares of our common stock held by non-affiliates, as shown on the cover page of this report, it has been assumed that all the outstanding shares were held by non-affiliates except for the shares beneficially held by our directors and executive officers. However, there may be other persons who may be deemed to be affiliates of ours.

We have never paid dividends on our common stock. We intend to retain our earnings for use in our business and, therefore, do not anticipate paying any cash dividends on our common stock for the foreseeable future. Additionally, per the terms of our existing Loan and Security Agreement with Silicon Valley Bank, any decision to pay dividends on our common stock would be subject to the bank’s approval.

Item 6.    Selected Financial Data.

You should read the following consolidated financial data in conjunction with the Financial Statements, including the related notes, and “Item 7—Management’s Discussion and Analysis of Financial Condition and Results of Operations.” The results shown herein are not necessarily indicative of the results to be expected for any future periods. This Annual Report on Form 10-K contains forward-looking statements that involve risks and uncertainties. The statements contained in this annual report that are not purely historical are forward-looking statements within the meaning of Section 27A of the Securities Act of 1933 and Section 21E of the Securities Exchange Act of 1934. Without limiting the foregoing, the words “may,” “will,” “should,” “could,” “expects,” “plans,” “intends,” “anticipates,” “believes,” “estimates,” “predicts,” “potential,” “continue” and similar expressions are intended to identify forward-looking statements. All forward-looking statements included in this Annual Report on Form 10-K are based on information available to us up to, and including the date of this document, and we assume no obligation to update any such forward-looking statements. Our actual results could differ materially from those anticipated in these forward-looking statements as a result of certain factors, including those set forth below under “Management’s Discussion and Analysis of Financial Condition and Results of Operations” and “Certain Factors That May Affect Future Results” and elsewhere in this Form 10-K. You should carefully review those factors and also carefully review the risks outlined in other documents that we file from time to time with the Securities and Exchange Commission.

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SELECTED CONSOLIDATED FINANCIAL DATA

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The Other Data above consists of a reconciliation of the Company’s loss before the cumulative effect of accounting changes and income taxes to pro forma net loss. The Company presents non-GAAP financial measures, in the form of pro forma results which exclude certain acquisition related items—specifically amortization of intangible assets and stock compensation expense—because the Company’s management believes it is a more accurate measurement of Bottomline’s overall operating performance. The Company uses these same measures internally in evaluating and assessing the operating performance of the Company. For fiscal year 1999, the Company did not have any such items, and accordingly, no pro forma data is presented. The Other Data is not a measurement of financial performance under accounting principles generally accepted in the United States.

Certain amounts have been reclassified to comply with recent accounting pronouncements, as more fully described in Management’s Discussion and Analysis of Financial Condition and Results of Operations and Note 2 of our consolidated financial statements.

Item 7.    Management’s Discussion and Analysis of Financial Condition and Results of Operations

The following discussion and analysis of our financial condition and results of operations should be read in conjunction with “Selected Consolidated Financial Data” and the financial statements and notes thereto appearing elsewhere in this Annual Report on Form 10-K.

Overview

We provide a comprehensive set of solutions for financial resource management (FRM). Our software products and services enable organizations to more effectively make and collect payments, send and receive invoices and conduct electronic banking. We offer both software designed to run on-site at the customer’s location as well as hosted solutions. Our products allow our customers to leverage the Internet in automating existing operations while increasing security and fraud avoidance. By enhancing, improving and streamlining a customer’s overall financial resource management capabilities, our products complement our customers’ existing information systems, accounting applications and banking functions. As a result, our solutions can be deployed quickly and efficiently. To help our customers receive the maximum value and meet their own particular needs, we also provide professional services for installation, training, consulting and product enhancement, as well as related equipment and supplies.

During fiscal year 2001, we acquired two companies, U.K.-based Checkpoint Holdings, Ltd. (now doing business as Bottomline Europe) and Flashpoint, Inc. (Flashpoint), a professional software development company. In acquiring Bottomline Europe, we opened a new distribution channel, expanded our international reach and increased our capacity to support our global customers and channel partners.

During fiscal year 2002, we acquired substantially all of the assets and assumed certain liabilities of eVelocity Corporation (“eVelocity”), a company that provides an electronic billing service for corporate legal departments.

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During fiscal year 2003, we acquired certain assets and assumed certain liabilities of the A1 Group of Companies (The) Limited (“A1”), a company that provides electronic funds transfer software and payment managed services to the UK market.

Our goal is to be the leading global provider of FRM solutions and services. Our customer base, at over 5,500 companies, is in industries such as financial services, health care, technology, communications, education, media, manufacturing and government and includes approximately half of the Fortune 100 companies and 90 of the FTSE (Financial Times Stock Exchange) 100 companies.

Our revenues are primarily derived from the following three sources:

Recent Accounting Pronouncements

In July 2001, the Financial Accounting Standards Board issued SFAS No. 141, “Business Combinations” and SFAS No. 142, “Goodwill and Other Intangible Assets”. SFAS No. 141 eliminated the pooling of interests method of accounting for acquisitions, and was effective for all business acquisitions completed after June 30, 2001. Under the provisions of SFAS No. 142, which the Company adopted on July 1, 2002, intangible assets with finite useful lives are amortized over their estimated useful lives in proportion to the economic benefits consumed. Such intangible assets are subject to the impairment provisions of SFAS No. 144 (discussed below). Goodwill and intangible assets with indefinite useful lives are no longer amortized, but are instead tested for impairment annually, or more frequently when events or circumstances occur indicating that an asset might be impaired. Upon adoption of SFAS 142, the Company performed a transitional impairment test on all indefinite lived intangible assets, including goodwill. As more fully discussed in Note 5 to the accompanying consolidated

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financial statements, as a result of the transitional impairment test the Company recorded an impairment charge of $13.8 million associated with goodwill in the Bottomline Europe reporting unit. This impairment change is reflected in the Company’s consolidated statement of operations as a cumulative effect of a change in accounting principle.

Effective July 1, 2002, the Company adopted SFAS No. 144, “Accounting for the Impairment or Disposal of Long-Lived Assets.” SFAS No. 144 supersedes SFAS No. 121, “Accounting for the Impairment of Long-Lived Assets and for Long-Lived Assets to Be Disposed Of” and provides a single accounting model for the disposal of long-lived assets. The adoption of SFAS 144 did not have a material impact on our consolidated financial statements.

In November 2002, the Emerging Issues Task Force reached consensus on EITF No. 00-21, “Accounting for Revenue Arrangements with Multiple Deliverables,” which addresses how to account for arrangements that may involve the delivery or performance of multiple products, services and/or rights to use assets. The guidance of EITF 00-21 will be applicable to agreements entered into in fiscal periods beginning after June 15, 2003 (fiscal 2004 for the Company) and companies will be permitted to apply the consensus guidance to all existing arrangements as the cumulative effect of a change in accounting principle. Bottomline will adopt EITF 00-21 on July 1, 2003. The Company believes that its current accounting is consistent with the provisions of EITF 00-21 and therefore does not believe that it will have a material impact on our consolidated financial statements.

Effective January 1, 2003, the Company adopted SFAS No. 146, “Accounting for Costs Associated with Exit or Disposal Activities.” SFAS 146 addresses the financial accounting and reporting for costs associated with exit or disposal activities and supersedes Emerging Issues Task Force Issue No. 94-3, “Liability Recognition for Certain Employee Termination Benefits and Other Costs to Exit an Activity (including Certain Costs Incurred in a Restructuring).” SFAS 146 requires that costs associated with an exit or disposal activity be recognized when a liability is incurred, rather than at the date of an entity’s commitment to an exit plan. The adoption of SFAS 146 did not have a material impact on our consolidated financial statements.

Effective January 1, 2003, the Company adopted FASB Interpretation No. 45, “Guarantor’s Accounting and Disclosure Requirements for Guarantees, Including Indirect Guarantees of Indebtedness of Others” (FIN 45). FIN 45 requires certain guarantees to be recorded at fair value and requires new disclosures related to guarantees. The initial recognition and measurement provisions of FIN 45 were effective for guarantees issued or modified after December 31, 2002. Additionally, new disclosure requirements applicable to all guarantees subject to the scope of FIN 45, including guarantees that arose prior to December 31, 2002, are effective for financial statements issued for periods ending after December 15, 2002. The adoption of FIN 45 did not have a material impact on our consolidated financial statements, however the Company has modified its disclosures herein as required by the pronouncement.

Effective January 1, 2003, the Company adopted SFAS No. 148, “Accounting for Stock Based Compensation—Transition and Disclosure—an amendment of FASB Statement No. 123.” SFAS 148 provides for alternative methods of voluntary transition to the fair value based method of accounting for stock-based employee compensation, and it requires more prominent disclosures, in both interim and annual financial statements, about the method of accounting for stock-based employee compensation and the effect of the method used on reported financial results. SFAS 148 is effective for interim periods beginning after December 15, 2002, and for annual periods ending after December 15, 2002. The adoption of SFAS 148 did not have a material impact on our consolidated financial statements, since the Company elected to continue to account for its stock based compensation using the intrinsic value method prescribed in APB 25. However, the Company has modified its disclosures herein as required by the pronouncement.

In January 2003, the Financial Accounting Standards Board issued Interpretation No. 46, “Consolidation of Variable Interest Entities” (FIN 46). FIN 46 requires variable interest entities to be consolidated by the primary beneficiary of the entity if certain criteria are met. FIN 46 is effective immediately for all variable interest entities created after January 31, 2003. For variable interest entities arising before February 1, 2003, FIN 46 is effective

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in the first fiscal year or interim period beginning after June 15, 2003 (effective as of July 1, 2003 for the Company). The Company is currently evaluating the impact of FIN 46, although at this time we do not believe that it will have a material impact on our consolidated financial statements.

Reclassifications

Certain prior year amounts have been reclassified to conform to the current year presentation.

Recent Developments

Critical Accounting Policies and Significant Judgments and Estimates

We believe that several accounting policies are important to understanding our historical and future performance. We refer to such policies as “critical” because these specific areas generally require us to make judgments and estimates about matters that are uncertain at the time we make the estimate, and different estimates—which also would have been reasonable—could have been used. These critical accounting policies and estimates relate to revenue recognition, goodwill and intangible assets and our equity investments. These critical policies, and our procedures related to these policies, are discussed below. In addition, refer to Note 2 to the accompanying consolidated financial statements for a discussion of all of our significant accounting policies.

Revenue Recognition

We derive our revenues from the sale of software licenses, professional services, software maintenance and equipment and supplies. We recognize revenue when persuasive evidence of an arrangement exists, delivery of the product has occurred, the fee is fixed and determinable and collectibility is probable. We consider a non-cancelable fully executed agreement or customer purchase order to be persuasive evidence of an arrangement. We consider delivery to have occurred upon transfer of product title to the customer, or completion of services rendered. We consider the fee to be fixed or determinable if the fee is not subject to adjustment, or if we have not granted extended payment terms to the customer (our normal payment terms do not exceed 90 days). We consider collection to be probable if our internal credit analysis indicates that the customer will be able to pay amounts as they become due under the arrangement.

Our sales arrangements can contain multiple revenue elements, such as software licenses, professional services, and hardware and software maintenance. Revenue earned on software arrangements involving multiple elements which qualify for separate element treatment is allocated to each element based on the relative fair values of those elements. Revenue is recognized for each element when the aforementioned revenue recognition criteria have been met.

Certain of our software development arrangements require significant customization and modification and extended implementation periods. These arrangements do not qualify for separate element revenue recognition treatment, as described above, and instead must be accounted for under contract accounting. Under contract accounting, companies must select from two generally accepted methods of accounting: the completed contract method and the percentage of completion method. The completed contract method recognizes revenue only upon contract completion, and all project costs and revenues are reported as deferred items in the balance sheet until that time. The percentage of completion method recognizes revenue on a contract as the work progresses, as a percentage of cumulative costs incurred compared to the total estimated project costs.

We have historically used the percentage of completion method of accounting for our long-term and custom contracts, since we believe that we can make reasonably dependable estimates of progress toward completion. Progress is measured based on cumulative costs incurred, as measured at the end of each reporting period, as a percentage of total expected project costs. Accordingly, the revenue we record in any reporting period for sales arrangements accounted for on a percentage of completion basis is dependent upon our estimates of the remaining costs that will be incurred in fulfilling our contractual obligations. Our estimates of total contract costs

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at the end of any reporting period could prove to be materially different from final actual contract costs, as determined only at subsequent stages of project completion. We solicit the input of our project professional staff on a monthly basis as well as at the end of each reporting period, for purposes of evaluating estimates toward completion, so that our estimates are based on the most recent cost projections available.

Goodwill and Intangible Assets

Effective July 1, 2002, we adopted the provisions of SFAS 142 relating to goodwill and intangible assets. We were required to perform a transitional impairment test upon adoption to determine the amount of goodwill impairment, if any. Based on the results of this impairment test, we recorded an impairment charge of $13.8 million associated with goodwill in the Bottomline Europe reporting unit. This amount has been recorded as a cumulative effect of a change in accounting principle in our consolidated statement of operations.

We utilized an outside valuation firm to assist us in calculating the required fair value amounts in connection with our impairment review. The principal component of each fair value calculation is the determination of discounted future cash flows, and there are a number of variables that we considered for purposes of projecting these future cash flows. There is inherent uncertainty involved with this estimation process, and —while our estimates are consistent with our internal planning assumptions—the ultimate accuracy of these estimates is only verifiable over time. The particularly sensitive components of these estimates include, but are not limited to:

The use of different assumptions or projections, in some or all of the areas noted above, would likely have resulted in different fair value results, thus affecting our determination of overall goodwill impairment.

We are required to test our goodwill at least annually for impairment. In addition to the transitional impairment test we performed upon implementation of SFAS 142, we also performed our annual goodwill impairment test during the fourth quarter of the fiscal year. As a result of this test, we concluded that no further goodwill impairment had occurred. At June 30, 2003, our goodwill carrying value was $7,156,000 and $10,674,000 in our Bottomline US and Bottomline Europe reporting units, respectively. There can be no assurance that there will not be additional impairment charges recorded in subsequent periods as a result of our on-going impairment review.

In addition to our goodwill review, we also perform periodic reviews of the carrying value of our other intangible assets. These intangible assets consist of acquired technology, customer lists and customer contracts. We specifically consider whether any indicators of impairment are present, including:

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If indicators of impairment are present, an estimate of the undiscounted cash flows that the specific asset is expected to generate must be made, to ensure that the carrying value of the asset can be recovered. These estimates involve significant subjectivity, similar to that which accompanies our goodwill valuation process. At June 30, 2003 the carrying value of our intangible assets, excluding goodwill, was $4,830,000. None of these assets were deemed to be impaired.

Equity Investments

We hold two equity investments in non-publicly traded companies over which we do not exercise significant influence. These investments are included within “Other Assets” in our consolidated balance sheet and are accounted for on a cost basis. Under the cost method of accounting, investments in non-publicly traded companies are carried at cost and are adjusted only for other than temporary declines in their fair values.

We periodically evaluate the carrying value of these investments for purposes of determining recoverability. This evaluation consists of a review of both qualitative and quantitative factors, including a review of the investee’s financial condition, results of operations, operating trends and financial ratios and, as available, forecasts and projections. We also consider the investee’s access to capital and its financing alternatives. Our review and analysis is highly dependent on receiving timely and accurate financial information from the investees. Should our analysis of these factors prove to be incorrect, our results of operations could be affected.

During the fiscal years ended June 30, 2003 and June 30, 2002, we recorded charges of $629,000 and $450,000, respectively, related to impairment that we judged to be other than temporary in our investments. The remaining carrying value of our equity investments was $71,000 at June 30, 2003.

Fiscal Year Ended June 30, 2003 Compared to Fiscal Year Ended June 30, 2002

Revenues

Total revenues decreased by $2.7 million to $71.3 million in the fiscal year ended June 30, 2003 from $74.0 million in the fiscal year ended June 30, 2002, a decrease of 4%.

Software Licenses.    Software license fees decreased by $3.0 million to $13.0 million in the fiscal year ended June 30, 2003 from $16.0 million in the fiscal year ended June 30, 2002, a decrease of 19%. Software license fees represented 18% of total revenues in the fiscal year ended June 30, 2003 compared to 22% of total revenues in the fiscal year ended June 30, 2002. The decrease in software license fees in dollars and as a percentage of revenues was primarily due to a reduction in software license revenues generated in the US as a result of a continued slowdown in overall information technology (IT) spending in the US, offset in part by an increase in the foreign currency exchange rate of the UK. Based on current plans, we anticipate that fiscal year 2004 software license fees will increase in fiscal year 2004.

Service and Maintenance.    Service and maintenance fees increased by $2.7 million to $40.9 million in the fiscal year ended June 30, 2003 from $38.2 million in the fiscal year ended June 30, 2002, an increase of 7%. Service and maintenance fees represented 57% of total revenues in the fiscal year ended June 30, 2003 compared to 52% of total revenues in the fiscal year ended June 30, 2002. The increase in service and maintenance fees in dollars and as a percentage of revenues was due to the revenue contribution from our WebSeries Legal eBilling offering which we introduced in May 2002 following our acquisition of substantially all of the assets of eVelocity Corporation, an increase in professional services revenues generated in Europe and an increase in the foreign currency exchange rate of the UK, offset in part by a reduction in professional services revenues generated in the US. Based on current product plans, we anticipate that fiscal year 2004 service and maintenance revenues will increase in fiscal year 2004.

Equipment and Supplies.    Equipment and supplies sales decreased by approximately $2.4 million to $17.4 million in the fiscal year ended June 30, 2003 from $19.8 million in the fiscal year ended June 30, 2002, a decrease of 12%. Equipment and supplies sales represented 24% of total revenues in the fiscal year ended

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June 30, 2003 compared to 27% of total revenues in the fiscal year ended June 30, 2002. The decrease in equipment and supplies revenues was attributable to a decrease in revenues in the US and Europe as a result of the continued migration of customers to our web-based products and solutions, which are not equipment and supplies intensive, offset in part by an increase in the foreign currency exchange rate of the UK. Based on current product plans, we anticipate that fiscal year 2004 equipment and supplies revenues will approximate fiscal year 2003 levels.

Cost of Revenues

Software Licenses.    Software license costs consist of expenses incurred by us to manufacture, package and distribute our software products and related documentation, costs of licensing third-party software incorporated into our products, and royalties to Northern Trust on revenues from our NetTransact product. Software license costs increased by approximately $400,000 to $1.9 million in the fiscal year ended June 30, 2003 from $1.5 million in the fiscal year ended June 30, 2002, an increase of 27%. Software license costs increased to 15% of software license fees in the fiscal year ended June 30, 2003 compared to 9% in the fiscal year ended June 30, 2002. The increase in software license costs was due primarily to an increased share of software license revenues generated in Europe and an increase in the volume of certain third party software used with some of our US products, on which we pay a royalty. Software revenues generated in Europe have historically carried a lower gross margin than US software revenues due to the cost of third party software, which is incorporated into and sold with the Europe software products. Based on current product plans, we anticipate that fiscal year 2004 software license costs, as a percentage of revenues, will approximate fiscal year 2003 levels.

Service and Maintenance.    Service and maintenance costs include salary expense and other related costs for our customer service, maintenance and help desk support staffs, as well as third-party contractor expenses used to complement our professional services team. Service and maintenance costs increased by approximately $1.9 million to $20.4 million in the fiscal year ended June 30, 2003 from $18.5 million in the fiscal year ended June 30, 2002, an increase of 10%. Service and maintenance costs were 50% of service and maintenance revenues in the fiscal year ended June 30, 2003 compared to 48% of service and maintenance revenues in the fiscal year ended June 30, 2002. The increase in service and maintenance costs is primarily attributable to the associated increase in professional services revenues generated in Europe, an increase in the foreign currency exchange rate of the UK and an increase in US development personnel who were utilized to perform billable customer work, the cost of which is included as a component of services cost of revenues. Based on current product plans, we anticipate that fiscal year 2004 service and maintenance costs, as a percentage of revenues, will approximate fiscal 2003 levels.

Equipment and Supplies.    Equipment and supplies costs decreased by approximately $900,000 to $13.6 million in the fiscal year ended June 30, 2003 from $14.5 million in the fiscal year ended June 30, 2002. Equipment and supplies costs were 78% of equipment and supplies sales in the fiscal year ended June 30, 2003 compared to 73% in the fiscal year ended June 30, 2002. The decrease in equipment and supplies costs was attributable to the associated decrease in equipment and supplies revenues. The increase in equipment and supplies costs as a percentage of equipment and supplies revenues was attributable to reduced profit margins in Europe, resulting from an increase in shipping costs which carry no gross margin and, to a lesser extent, from higher third party costs associated with supplies that are sold in Europe. The UK began experiencing higher third party costs in the current fiscal year and our expectation is that this higher cost structure will continue. Based on current product plans, we anticipate that fiscal year 2004 equipment and supplies costs, as a percentage of revenues, will approximate fiscal year 2003 levels.

Operating Expenses

Sales and Marketing:

Sales and Marketing.    Sales and marketing expenses consist primarily of salaries and other related costs for sales and marketing personnel, sales commissions, travel, public relations, marketing materials and trade shows. Sales and marketing expenses decreased by $2.4 million to $17.1 million in the fiscal year ended June 30, 2003

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from $19.5 million in the fiscal year ended June 30, 2002, a decrease of 12%. Sales and marketing expenses were 24% of total revenues in the fiscal year ended June 30, 2003 compared to 26% in the fiscal year ended June 30, 2002. Sales and marketing expenses decreased in the US as a result of a reduction in salaries and commissions, resulting from reduced headcount and lower revenues, particularly software revenues. These reductions were partially offset by employee severance and separation related costs as a result of cost reduction initiatives implemented in the US and in the UK during the first six months of fiscal year 2003 and by an increase in the foreign currency exchange rate of the UK. We anticipate that sales and marketing expenses will decrease, as a percentage of revenues, in fiscal year 2004.

Product Development and Engineering:

Product Development and Engineering.    Product development and engineering expenses consist primarily of personnel costs to support core product development, which continues to focus on enhancements and revisions to our products based on customer feedback and marketplace demands. Product development and engineering expenses decreased by approximately $1.7 million to $12.1 million in the fiscal year ended June 30, 2003 from $13.8 million in the fiscal year ended June 30, 2002, a decrease of 12%. Product development and engineering expenses were 17% of total revenues in the fiscal year ended June 30, 2003 compared to 19% in the fiscal year ended June 30, 2002. The decrease in product development and engineering expenses was due to a reduction in salaries and employee related costs as a result of reduced US headcount and a shift in focus for certain US personnel from core development work to billable customer work, the cost of which is classified as a component of cost of revenues. The reductions in cost were partially offset by employee severance and separation related costs as a result of cost reduction initiatives implemented during fiscal year 2003, and by an increase in the foreign currency exchange rate of the UK. We anticipate that product development and engineering expenses will decrease, as a percentage of revenues, in fiscal year 2004.

Stock Compensation Expense.    In connection with our acquisition of Flashpoint, we assumed all of the outstanding common stock options of Flashpoint, which were exchanged for options to purchase our common stock, and recorded deferred compensation of $1.3 million relating to the intrinsic value of the unvested options. The deferred compensation is being amortized to expense over the remaining vesting period of the options and resulted in $71,000 and $411,000 of stock compensation expense for the fiscal years ended June 30, 2003 and June 30, 2002, respectively. The decrease in stock compensation expense was due principally to the forfeiture of unvested stock options as a result of employee separations and the completion of the vesting period for certain of the stock options. The remaining, unamortized deferred compensation balance of $78,000 at June 30, 2003 will be fully amortized during fiscal year 2004.

General and Administrative:

General and Administrative.    General and administrative expenses consist primarily of salaries and other related costs for operations, finance, information technologies, legal and accounting services and general corporate overhead. General and administrative expenses increased by approximately $100,000 to $11.1 million in the fiscal year ended June 30, 2003 from $11.0 million in the fiscal year ended June 30, 2002, an increase of 1%. General and administrative expenses were 16% of total revenues in the fiscal year ended June 30, 2003 compared to 15% in the fiscal year ended June 30, 2002. The increase in general and administrative expenses was attributable to an increase in facility related expenses, due to a full year in our US headquarters facility, and an increase in the foreign currency exchange rate of the UK, offset in part by a reduction in salaries and related costs as a result of cost reduction initiatives implemented in the US and Europe. We anticipate that general and administrative expenses will decrease, as a percentage of revenues, in fiscal year 2004.

Amortization of Intangible Assets:

Amortization of Intangible Assets.    Amortization of intangible assets decreased by $24.8 million to $8.8 million in the fiscal year ended June 30, 2003 from $33.6 million in the fiscal year ended June 30, 2002. The

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decrease in amortization expense is due to the adoption of SFAS 142, effective July 1, 2002. Under SFAS 142, goodwill is no longer subject to recurring amortization but instead is tested for impairment annually, or more frequently when events or circumstances occur indicating that an asset might be impaired.

Other Income (Expense), Net

Interest Income.    Interest income was $272,000 in the fiscal year ended June 30, 2003 compared to $369,000 in the fiscal year ended June 30, 2002. The decrease in interest income was attributable to a decrease in the rate of return, due to declining interest rates, on our investments during the fiscal year.

Interest Expense.    Interest expense was $28,000 in the fiscal year ended June 30, 2003 compared to $19,000 in the fiscal year ended June 30, 2002. Interest expense relates predominantly to interest associated with a promissory note assumed by Bottomline US in connection with the acquisition of certain assets of eVelocity in May, 2002.

Other Expense, Net.    Other expense, net consists of losses on our equity investments and foreign currency transaction gains and losses. Other expense, net increased by $146,000 to $433,000 in the fiscal year ended June 30, 2003 from $287,000 in the fiscal year ended June 30, 2002. The other expense, net included impairment losses on our equity investments, which we judged to be other than temporary, in the amounts of $629,000 and $450,000 in the fiscal years ended June 30, 2003 and June 30, 2002. The investments are in non-public entities accounted for under the cost method. The carrying value of all of our equity investments was approximately $71,000 and $700,000 at June 30, 2003 and June 30, 2002, respectively.

Provision for Income Taxes.    The provision for income taxes consists of a small amount of US state tax expense which will be incurred irrespective of out net operating loss position, and was $60,000 for the fiscal years ended June 30, 2003 and June 30, 2002.

Cumulative Effect of Accounting Change.    Upon adoption of SFAS 142 on July 1, 2002, the Company recorded an impairment charge of $13.8 million associated with impairment of goodwill in the Bottomline Europe reporting unit. This amount has been reported as a cumulative effect of an accounting change, as required by SFAS 142, in the fiscal year ended June 30, 2003. There were no comparable items in the year ended June 30, 2002.

Net Loss.    Net loss decreased by $10.9 million to a $27.9 million loss in the fiscal year ended June 30, 2003 from a $38.8 million loss in the fiscal year ended June 30, 2002. The decrease in the net loss was primarily due to the adoption of SFAS 142 under which goodwill is no longer subject to recurring amortization, offset by a goodwill impairment charge of $13.8 million which was recorded as a cumulative effect of a change in accounting principle. We anticipate a decrease in the net loss for fiscal year 2004, principally as the result of a reduction in amortization expense on certain finite lived intangible assets of the Bottomline Europe reporting unit which will become fully amortized during 2004.

Fiscal Year Ended June 30, 2002 Compared to Fiscal Year Ended June 30, 2001

Revenues

Total revenues decreased by $3.7 million to $74.0 million in the fiscal year ended June 30, 2002 from $77.7 million in the fiscal year ended June 30, 2001, a decrease of 5%.

Software Licenses.    Software license fees decreased by $7.6 million to $16.0 million in the fiscal year ended June 30, 2002 from $23.6 million in the fiscal year ended June 30, 2001, a decrease of 32%. Software license fees represented 22% of total revenues in the fiscal year ended June 30, 2002 compared to 30% of total revenues in the fiscal year ended June 30, 2001. The decrease in software license fees in dollars and as a percentage of revenues was due primarily to the current economic conditions and reduced capital spending by

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our customers and potential customers, offset by a full year of revenue contribution from Bottomline Europe. In addition, our strong service and maintenance revenues further reduced software licenses as a percentage of total revenues.

Service and Maintenance.    Service and maintenance fees increased by $4.0 million to $38.2 million in the fiscal year ended June 30, 2002 from $34.2 million in the fiscal year ended June 30, 2001, an increase of 12%. Service and maintenance fees represented 52% of total revenues in the fiscal year ended June 30, 2002 compared to 44% of total revenues in the fiscal year ended June 30, 2001. The increase in service and maintenance fees as a percentage of revenues was due to a full year of revenue contribution from Bottomline Europe, two months of service revenues contributed by our eVelocity acquisition, strong recurring maintenance revenues from our existing installed customer base, as well as lower software license fees in fiscal year 2002.

Equipment and Supplies.    Equipment and supplies sales decreased by approximately $100,000 to $19.8 million in the fiscal year ended June 30, 2002 from $19.9 million in the fiscal year ended June 30, 2001, relatively unchanged year over year. Equipment and supplies sales represented 27% of total revenues in the fiscal year ended June 30, 2002 compared to 26% of total revenues in the fiscal year ended June 30, 2001.

Cost of Revenues

Software Licenses.    Software license costs consist of expenses incurred by us to manufacture, package and distribute our software products and related documentation, costs of licensing third-party software incorporated into our products, and royalties to Northern Trust on revenues from our NetTransact product. Software license costs decreased by approximately $800,000 to $1.5 million in the fiscal year ended June 30, 2002 from $2.3 million in the fiscal year ended June 30, 2001, a decrease of 35%. Software license costs decreased to 9% of software license fees in the fiscal year ended June 30, 2002 compared to 10% in the fiscal year ended June 30, 2001. The decrease in software license costs was due primarily to the associated decrease in software license revenues. The decrease of software license costs as a percentage of software license revenues was due primarily to a write down, in the fiscal year ended June 30, 2001, of third-party software acquired for resale and held in inventory, partially offset by a full year contribution from Bottomline Europe.

Service and Maintenance.    Service and maintenance costs include salary expense and other related costs for our customer service, maintenance and help desk support staffs, as well as third-party contractor expenses used to complement our professional services team. Service and maintenance costs increased by approximately $400,000 to $18.5 million in the fiscal year ended June 30, 2002 from $18.1 million in the fiscal year ended June 30, 2001, an increase of 2%. Service and maintenance costs were 48% of service and maintenance revenues in the fiscal year ended June 30, 2002 compared to 53% of service and maintenance revenues in the fiscal year ended June 30, 2001. The increase in service and maintenance costs was due primarily to a higher number of percentage of completion revenue projects during the year. These percentage of completion revenue projects generally require additional resources from our development team, which then become part of service and maintenance cost of sales. The decrease in service and maintenance costs as a percentage of service and maintenance revenues is primarily the result of cost reductions implemented in the fourth quarter of fiscal 2001.

Equipment and Supplies.    Equipment and supplies costs remained unchanged at $14.5 million in the fiscal years ended June 30, 2002 and June 30, 2001. Equipment and supplies costs were 73% of equipment and supplies sales in the fiscal years ended June 30, 2002 and 2001.

Operating Expenses

Sales and Marketing:

Sales and Marketing.    Sales and marketing expenses consist primarily of salaries and other related costs for sales and marketing personnel, sales commissions, travel, public relations, marketing materials and trade shows. Sales and marketing expenses decreased by $4.2 million to $19.5 million in the fiscal year ended June 30, 2002

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from $23.7 million in the fiscal year ended June 30, 2001, a decrease of 18%. Sales and marketing expenses were 26% of total revenues in the fiscal year ended June 30, 2002 compared to 31% in the fiscal year ended June 30, 2001. The dollar decrease in sales and marketing expenses was due primarily to cost reductions implemented in the fourth quarter of fiscal 2001, partially offset by a full year of sales and marketing expenses from our Bottomline Europe and Flashpoint acquisitions.

Product Development and Engineering:

Product Development and Engineering.    Product development and engineering expenses consist primarily of personnel costs to support product development. Product development and engineering expenses increased by approximately $400,000 to $13.8 million in the fiscal year ended June 30, 2002 from $13.4 million in the fiscal year ended June 30, 2001, an increase of 3%. Before the stock compensation expense described below, product development and engineering expenses were 19% of total revenues in the fiscal year ended June 30, 2002 compared to 17% in the fiscal year ended June 30, 2001. The dollar increase was due primarily to a full year of Flashpoint and Bottomline Europe product development and engineering expenses, as well as additional development personnel expenses from our eVelocity acquisition.

Stock Compensation Expense.    In connection with our acquisition of Flashpoint, we assumed all of the outstanding common stock options of Flashpoint, which were exchanged for options to purchase our common stock, and recorded deferred compensation of $1.3 million relating to the intrinsic value of the unvested options. The deferred compensation is being amortized to expense over the remaining vesting period of the options and resulted in $411,000 and $349,000 of stock compensation expense for the fiscal years ended June 30, 2002 and 2001, respectively.

General and Administrative:

General and Administrative.    General and administrative expenses consist primarily of salaries and other related costs for operations, finance, information technologies, legal and accounting services and general corporate overhead. General and administrative expenses decreased by $2.4 million to $11.0 million in the fiscal year ended June 30, 2002 from $13.4 million in the fiscal year ended June 30, 2001, a decrease of 18%. Before the amortization of intangible assets described below, general and administrative expenses were 15% of total revenues in the fiscal year ended June 30, 2002 compared to 17% in the fiscal year ended June 30, 2001. The dollar decrease was due primarily to cost reductions implemented in the fourth quarter of fiscal 2001, partially offset by a full year of general and administrative expenses from our Bottomline Europe and Flashpoint acquisitions.

Amortization of Intangible Assets:

Amortization of Intangible Assets.    Amortization of intangible assets increased by $3.1 million to $33.6 million in the fiscal year ended June 30, 2002 from $30.5 million in the fiscal year ended June 30, 2001. The increase in current year amortization is due to a full year of amortization expense associated with the acquisitions of Bottomline Europe and Flashpoint. Upon adoption of SFAS 142 on July 1, 2002, we ceased amortization of goodwill and any amounts reclassified to goodwill.

Other Income (Expense), Net

Interest Income.    Interest income was $369,000 in the fiscal year ended June 30, 2002 compared to $988,000 in the fiscal year ended June 30, 2001.

Interest Expense.    Interest expense was $19,000 in the fiscal year ended June 30, 2002 compared to $1.5 million in the fiscal year ended June 30, 2001. The interest expense in the fiscal year ended June 30, 2001 was due to interest expense on promissory notes issued in connection with our acquisition of Bottomline Europe, which were retired in exchange for our common stock in the quarter ended June 30, 2001.

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Other Expense, Net.    Other expense, net consists of gains and losses on foreign currency fluctuations and other expenses. Other expense, net was $287,000 in the fiscal year ended June 30, 2002 compared to $250,000 in the fiscal year ended June 30, 2001. The expense in the fiscal year ended June 30, 2002 was the result of a $450,000 write-down due to impairment of an equity investment, partially offset by foreign currency gains. After the write-down, the carrying value of this investment is $450,000. The expense in the fiscal year ended June 30, 2001 was the result of a $250,000 write-down due to impairment of an equity investment in a non-public company. The carrying value of this investment, after the write-down, is $250,000.

Provision (Benefit) for Income Taxes.    Provision for income taxes was $60,000 for the fiscal year ended June 30, 2002, which represents a decrease of $654,000 from a $714,000 provision in the fiscal year ended June 30, 2001. The effective tax rate in the fiscal year ended June 30, 2002 was 0.2% compared to 1.8% in the fiscal year ended June 30, 2001. The effective tax rate of 0.2% and 1.8% in fiscal years June 30, 2002 and 2001, respectively, differed from the federal statutory rate due principally to the recording of a full valuation allowance for the deferred tax assets, primarily goodwill amortization and a net operating loss carry forward, and non-deductible goodwill amortization. As of June 30, 2002 and 2001, our net deferred tax assets were fully reserved since, based on the available evidence, it was deemed more likely than not that the deferred tax assets will not be realized. The valuation allowance increased by $9.8 million in the fiscal year ended June 30, 2002.

Net Loss.    Net loss decreased by $1.2 million to a $38.8 million loss in the fiscal year ended June 30, 2002 from a $40.0 million loss in the fiscal year ended June 30, 2001. The decrease in net loss was due primarily to cost reductions implemented in the fourth quarter of fiscal year 2001 along with the reduction in interest expense offset by a decrease in revenue generally, and software revenue specifically, which carries higher gross margins than our other revenue streams.

Liquidity and Capital Resources

We have financed our operations primarily from cash provided by operating activities and the sale of our common stock. We had net working capital of $17.6 million at June 30, 2003, including cash and cash equivalents totaling $25.8 million.

In October 2001, the Company entered into a lease amendment for our corporate headquarters. In connection with the lease amendment, we issued a $2 million letter of credit to our landlord (see Note 8 of our consolidated financial statements). Also in connection with the lease amendment, we issued to the landlord 100,000 shares of our common stock and a warrant to purchase an additional 100,000 shares of our common stock at an exercise price of $4.25 per share. The warrant was fully vested and exercisable upon issuance and expires in October 2004. The fair value of the common stock and warrant issued, $750,000, was capitalized and is being amortized as rent expense over the term of the lease. The warrant was valued using the Black-Scholes method of valuation.

During fiscal year 2002, our Board of Directors authorized a repurchase program for the repurchase of our common stock. The repurchase program was amended twice and at June 30, 2003, we had repurchased an aggregate total of $6.2 million of our common stock under these repurchase programs. A portion of the shares repurchased by the Company have been reissued in connection with the exercise of employee stock options and in connection with shares issued under our employee stock purchase plan.

In January 2002, we entered into a stock purchase agreement with entities affiliated with General Atlantic Partners, LLC (General Atlantic), a global private equity investment firm, whereby we issued 2.1 million shares of common stock at $8.25 per share, generating gross proceeds of approximately $17.3 million to us.

In May 2002, in connection with our acquisition of substantially all of the assets and assumption of certain liabilities of eVelocity, we assumed the obligation on a promissory note issued to a third party in the principal amount of $758,600 plus accrued interest. Under the terms of the promissory note, principal plus accrued interest

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is due in three equal installments. The first two installments were paid on May 31, 2002, and February 15, 2003, respectively. The third and final payment of principal and interest is due on February 15, 2004. The promissory note accrues interest at the prime rate (4.00% at June 30, 2003) plus 2%.

In December 2002, the Company extended, through December 27, 2003, its Loan and Security Agreement (Credit Facility), which provides for aggregate borrowings of up to $5 million and requires the Company to maintain certain financial covenants. Eligible borrowings are based on a borrowing base calculation of the Company’s eligible accounts receivable as defined in the Credit Facility. Borrowings under the Credit Facility are secured by substantially all US owned assets of the Company, bear interest at the bank’s prime rate (4.00% at June 30, 2003) plus one-half of one percent and are due on the expiration date of the Credit Facility. The Credit Facility also provides for the issuance of up to $2 million in letters of credit for, and on behalf of, the Company. The borrowing capacity under the Credit Facility is reduced by any outstanding letters of credit. At June 30, 2003, a $2 million letter of credit has been issued to the Company’s landlord as part of a lease amendment for its corporate headquarters. There were no outstanding borrowings under the Credit Facility at June 30, 2003.

In February 2003, the Company’s subsidiary, Bottomline Europe, renewed through December 31, 2003, its Committed Overdraft Facility (Overdraft Facility), which provides for borrowings of up to 2 million British Pound Sterling. Borrowings under this Overdraft Facility are secured by substantially all assets of Bottomline Europe, bear interest at the bank’s base rate (3.75% at June 30, 2003) plus 2% and are due on the expiration date of the Overdraft Facility. As disclosed in Note 14 of our consolidated financial statements, Bottomline US has guaranteed repayment of any amounts borrowed under the Overdraft Facility. There were no outstanding borrowings under the Overdraft Facility at June 30, 2003.

In March 2003, we entered into a stock purchase agreement with General Atlantic, an affiliate of the Company, whereby we issued 270,000 shares of common stock at $5.54 per share, generating gross proceeds of approximately $1.5 million to us.

In May 2003, we acquired certain assets and assumed certain liabilities of the A1 Group of Companies (The) Limited (“A1”). The purchase price consideration, as measured at exchange rates in effect at the date of the acquisition, was approximately $302,000 in cash. In addition to the initial purchase consideration, there is consideration payable to A1 of up to $124,000 (based on fiscal year-end exchange rates) pending the outcome of a detailed review and evaluation of A1’s customer lists and customer contracts that we acquired. We expect to make any required additional payments of consideration no later than November 30, 2003.

Net cash provided by operating activities was $571,000 in the fiscal year ended June 30, 2003 and $4.6 million in the fiscal year ended June 30, 2002. Net cash used in operating activities was $1.5 million in the fiscal year ended June 30, 2001. Net cash provided by operating activities for the fiscal year ended June 30, 2003 was primarily due to decreases in accounts receivable, inventory, prepaid expenses, and other assets, offset by the net loss as adjusted for non-cash items. Net cash provided by operating activities for the fiscal year ended June 30, 2002 was primarily due to decreases in accounts receivable and refundable income taxes, partially offset by the net loss as adjusted for non-cash items. Net cash used in operating activities for the fiscal year ended June 30, 2001 was primarily due to the net loss as adjusted for non-cash items and decreases in accounts payable and accrued expenses, partially offset by decreases in accounts receivable, inventory, prepaid expenses, and increases in deferred revenues.

Net cash used in investing activities was $2.1 million, $5.2 million and $3.7 million in the fiscal years ended June 30, 2003, 2002 and 2001, respectively. Cash was primarily used in the fiscal years ended June 30, 2003, 2002, and 2001, to acquire property and equipment and to acquire other businesses. We expect to incur consistent levels of capital expenditure obligations in fiscal year 2004.

Net cash provided by financing activities was $1.2 million in the fiscal year ended June 30, 2003 and $13.2 million in the fiscal year ended June 30, 2002. Net cash used in financing activities was $8.8 million in the fiscal year ended June 30, 2001. Net cash provided by financing activities for the fiscal year ended June 30, 2003 was

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primarily the result of proceeds received from the sale of our common stock to General Atlantic, the exercise of stock options and the exercise of options under the employee stock purchase plan, partially offset by the repurchase of our common stock and payments on long term debt. Net cash provided by financing activities in the fiscal year ended June 30, 2002 was primarily the result of proceeds received from the sale of our common stock to General Atlantic partially offset by the repurchase of our common stock. Net cash used in financing activities in the fiscal year ended June 30, 2001 was primarily the result of the payment of liabilities assumed as part of the acquisition of Bottomline Europe.

We lease our principal office facility in Portsmouth, New Hampshire under a non-cancelable operating lease expiring in fiscal year 2012. In addition to the base term, we have two five-year options to extend the term of the lease. Rent payments are fixed for the term of the lease, subject to increases each year, based on fluctuations in the consumer price index. We are additionally obligated to pay certain incremental operating expenses over the base rent. We also lease domestic facilities in San Francisco, California; New York, New York; Great Neck, New York and Boston, Massachusetts. We own office space in Reading, England and lease facilities in Reading, London, and Manchester, England; and Belfast, Ireland.

In addition, we have various operating leases for office equipment and vehicles. Our lease obligations for facilities, office equipment and vehicles for each of the next five fiscal years and thereafter are as follows:

As of June 30, 2003 and 2002 our deferred tax assets had been fully reserved since given the available evidence it was deemed more likely than not that the deferred tax assets would not be realized.

On March 7, 2002, there was a change in the U.S. federal tax law to allow companies to carryback, for an additional three-year period, net operating losses for the tax years ending 2001 and 2002. As a result of this change, we recorded approximately $772,000 in federal tax refunds. As this amount of additional carryback opportunity related entirely to the tax benefit associated with the exercise of non-qualified stock options, such benefit was recorded as an increase to additional paid-in capital. At June 30, 2003, we have available net US operating loss carry-forwards of $19.2 million, which expire at various times through the year 2023. We also have $2.1 million of foreign net operating losses available with no statutory expiration date and $1.2 million of research and development tax credits available, which expire at various times through the year 2023.

We believe that the cash generated from operations and cash equivalents on hand will be sufficient to meet our working capital requirements for at least the next twelve months. We also may receive additional investments from, and make investments in, customers or other companies. We also may undertake additional business or asset acquisitions.

During the twelve months ended June 30, 2003, we did not engage in:

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CERTAIN FACTORS THAT MAY AFFECT FUTURE RESULTS

Investing in our common stock involves a high degree of risk. You should carefully consider the risks and uncertainties described below before making an investment decision involving our common stock. The risks and uncertainties described below are not the only ones facing our company. Additional risks and uncertainties may also impair our business operations. If any of the following risks actually occur, our business, financial condition or results of operations would likely suffer. In that case, the trading price of our common stock could fall, and you may lose all or part of the money you paid to buy our common stock.

The slowdown in the economy has affected the market for information technology solutions, including our products and services, and if this slowdown continues our future financial results could be materially adversely affected

As a result of continuing unfavorable economic conditions and reduced capital spending by our customers and potential customers, demand for our products and services has been adversely affected. This has resulted in decreased revenues, particularly software license revenues, and a decline in our growth rate. To date, the US marketplace has been particularly affected but there can be no assurance that this trend will not extend, to the same degree, to the UK marketplace. Our future results will be materially and adversely affected if this slowdown continues or worsens and our revenues continue to be adversely impacted. In connection with the economic slowdown, we have implemented several cost reduction initiatives in an attempt to improve our profitability. If current economic conditions continue or worsen, these cost reductions may prove to be inadequate and we may experience a material adverse impact on our business, operating results, and financial condition.

Our common stock has experienced and may continue to undergo extreme market price and volume fluctuations

Stock markets in general, and The NASDAQ Stock Market in particular, have experienced extreme price and volume fluctuations, particularly in recent years. Broad market fluctuations of this type may adversely affect the market price of our common stock. The stock prices for many companies in the technology sector have experienced wide fluctuations that often have been unrelated to their operating performance. The market price of our common stock has experienced and may continue to undergo extreme fluctuations due to a variety of factors, including:

Our fixed costs may lead to operating results below analyst or investor expectations if our revenues are below anticipated levels, which could adversely affect the market price of our common stock

A significant percentage of our expenses, particularly personnel and facilities costs, are relatively fixed and based in part on anticipated revenue levels. We have undergone, and are currently experiencing, slowing growth

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rates due to the current economic climate. A decline in revenues without a corresponding and timely slowdown in expense growth could continue to negatively affect our business. Significant revenue shortfalls in any quarter may cause significant declines in operating results since we may be unable to reduce spending in a timely manner.

Quarterly operating results that are below the expectations of public market analysts could adversely affect the market price of our common stock. Factors that could cause fluctuations in our operating results include the following:

Because of these factors, we believe that period-to-period comparisons of our results of operations are not necessarily meaningful.

Our mix of products and services could have a significant effect on our financial condition, results of operations and the market price of our common stock

Our products and services have considerably varied gross margins. Software revenues in general yield significantly higher gross margins than do our service, maintenance, and equipment and supplies revenue streams. In the past year we have experienced a decrease in software license fees, particularly in the US, as a result of the continued slowdown in overall IT spending. If software license fees continue to decline or if the mix of our products and services in any given period does not match our expectations, our results of operations and the market price of our common stock could be significantly affected.

As a result of our acquisitions, we could be subject to significant future write-offs with respect to intangible assets, which may adversely affect our future operating results

In July 2001, the Financial Accounting Standards Board issued Statement of Financial Accounting Standards No. 142, Goodwill and Other Intangible Assets, which required that goodwill and intangible assets with indefinite useful lives no longer be amortized, but instead be tested annually for impairment, or more frequently when events or circumstances occur indicating that goodwill might be impaired. Effective July 1, 2002, we adopted SFAS No. 142, which required us to perform a transitional impairment test on all indefinite lived intangible assets. In connection with our transition to SFAS 142, we recorded an impairment charge of $13.8 million in relation to the goodwill of our Bottomline Europe reporting unit. At June 30, 2003, the carrying value of our goodwill and our other intangible assets was $17.8 million and $4.8 million, respectively. We could be subject to future impairment charges with respect to these intangible assets, or intangible assets arising as a result of additional acquisitions in future periods. Such charges could have a material adverse effect on our future operating results.

We face risks associated with our international operations that could harm our financial condition and results of operations

In recent periods, a significant percentage of our revenues has been generated by our international operations, and our future growth rates and success are in part dependent on our continued growth and success in

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international markets. As is the case with most international operations, the success and profitability of our international operations are subject to numerous risks and uncertainties that include, in addition to the risks our business as a whole faces, the following:

A significant percentage of our revenues to date have come from our payment management offerings and our performance will depend on continued market acceptance of these solutions

A significant percentage of our revenues to date have come from the license and maintenance of our payment management offerings and sales of associated products and services. Any significant reduction in demand for our payment management offerings could have a material adverse effect on our business, operating results and financial condition. Our future performance could depend on the following factors:

Our future financial results will depend upon the acceptance of electronic invoice presentment product offerings in an emerging market

Our electronic invoice presentment business model is in the early stages of market adoption, even though the product has been generally available from us and our competitors for some time. Customers and potential customers may not be ready to adopt our electronic invoice presentment business model, or may be slower to adopt the model than we, or the public market analysts, anticipate. If this emerging market does not adopt our business model or the market does not respond as quickly as we expect, our future results could be materially and adversely affected.

We face significant competition in our targeted markets, including competition from companies with significantly greater resources

In recent years we have encountered increasing competition in our targeted markets. We compete with a wide range of companies, ranging from small start-up enterprises with limited resources, which compete principally on the basis of technology features or specific customer relationships, to large companies, which can leverage significant customer bases and financial resources. Given the size and nature of our targeted markets, the implementation of our growth strategy and our success in competing for market share generally may be dependent on our ability to grow our sales and marketing capabilities and maintain a critical level of financial resources. We have undergone, and are currently experiencing, slowing growth rates due to current economic conditions. If this slower growth rate continues or accelerates, we could lose market share to competitors.

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Integration of acquisitions or strategic investments could interrupt our business and our financial condition could be harmed

We have made several acquisitions of companies and assets in the past, including the acquisition of substantially all of the assets and certain of the liabilities of eVelocity Corporation in May 2002, and may, in the future, acquire or make investments in other businesses, products or technologies. Any acquisition or strategic investment we have made in the past or may make in the future may entail numerous risks. For example, in December 2002, Protel, Inc. sought to add Bottomline as a defendant in a claim by Protel alleging infringement of certain Protel patents by technology we acquired from eVelocity, which claim we subsequently settled. In addition to exposure to litigation from parties, including stockholders and creditors, affiliated with a company or business unit we acquire, our business is subject to risks that include the following:

Any such difficulties encountered as a result of any merger, acquisition or strategic investment could adversely affect our business, operating results and financial condition.

Our success depends on the widespread adoption of the Internet as a medium for electronic business

Our future success will in large part depend upon the willingness of businesses and financial institutions to adopt the Internet as a medium of e-business. These entities will probably accept this medium only if the Internet provides substantially greater efficiency and enhances their competitiveness. In addition, critical issues involved in the commercial use of the Internet are not yet fully resolved, including concerns regarding the Internet’s security, reliability, ease of access and quality of service.

To the extent that any of these or other issues inhibit or limit the adoption of the Internet as a medium of e-commerce, our business prospects could be adversely affected. If electronic business does not continue to grow or grows more slowly than expected, demand for our products and services may be reduced.

We depend on key employees who are skilled in e-commerce, payment, cash management and invoice presentment methodology and Internet and other technologies

Our success depends upon the efforts and abilities of our executive officers and key technical employees who are skilled in e-commerce, payment methodology and regulation, and Internet, database and network technologies. The loss of one or more of these individuals could have a material adverse effect on our business. We currently do not maintain “key man” life insurance policies on any of our employees. While some of our executive officers have employment agreements with us, the loss of the services of any of our executive officers or other key employees could have a material adverse effect on our business, operating results and financial condition.

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We must attract and retain highly skilled personnel with knowledge in e-commerce, payment, cash management and invoice presentment methodology and Internet and other technologies

We believe that our success is in part dependent upon our ability to attract, hire, train and retain highly skilled technical, sales and marketing, and support personnel, particularly with expertise in e-commerce, payment, cash management and invoice methodology and Internet and other technologies. Competition for qualified personnel is intense. As a result, we may experience increased compensation costs that may not be offset through either improved productivity or higher sales prices. There can be no assurances that we will be successful in attracting, recruiting or retaining existing personnel. Based on our experience, it takes an average of nine months for a salesperson to become fully productive. We cannot assure you that we will be successful in increasing the productivity of our sales personnel, and the failure to do so could have a material adverse effect on our business, operating results and financial condition.

An increasing number of large and more complex customer contracts may impact the timing of our revenue recognition and affect our operating results, financial condition and the market price of our stock

Due to an increasing number of large and more complex customer contracts in the US, we have experienced, and will likely continue to experience, delays in the timing of our revenue recognition. These large and complex customer contracts generally require significant implementation work, product customization and modification resulting in the recognition of revenue on a percentage of completion basis. Delays in revenue recognition on these contracts could affect our operating results, financial condition and the market price of our common stock.

Increased competition may result in price reductions and decreased demand for our product solutions

The payments and electronic invoice presentment software markets in which we compete are intensely competitive and characterized by rapid technological change. Some competitors in our targeted markets have longer operating histories, significantly greater financial, technical, and marketing resources, greater brand recognition and a larger installed customer base than we do. We expect to face additional competition as other established and emerging companies enter the markets for payment and electronic invoice presentment software solutions. In addition, current and potential competitors may make strategic acquisitions or establish cooperative relationships to expand their product offerings and to offer more comprehensive solutions. This growing competition may result in price reductions of our products and services, reduced revenues and gross margins and loss of market share, any one of which could have a material adverse effect on our business, operating results and financial condition.

Our success depends on our ability to develop new and enhanced software, services and related products

The payments and electronic invoice presentment software markets in which we compete are subject to rapid technological change and our success is dependent on our ability to develop new and enhanced software, services and related products that meet evolving market needs. Trends that could have a critical impact on us include:

There can be no assurance that technological advances will not cause our technology to become obsolete or uneconomical. If we are unable to develop and introduce new products, or enhancements to existing products, in a timely and successful manner, our business, operating results and financial condition could be materially adversely affected.

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Any unanticipated performance problems or bugs in our product offerings could have a material adverse effect on our future financial results

If the products that we offer do not continue to achieve market acceptance, our future financial results will be adversely affected. Since certain of our software solutions are still in early stages of adoption, any unanticipated performance problems or bugs that we have not been able to detect could result in additional development costs, diversion of technical and other resources from our other development efforts, negative publicity regarding us and our products, harm to our customer relationships and exposure to potential liability claims. In addition, if these products do not enjoy wide commercial success, our long-term business strategy will be adversely affected, which could have a material adverse effect on our business, operating results and financial condition.

We could incur substantial costs resulting from warranty claims or product liability claims

Our software license agreements typically contain provisions that afford customers a degree of warranty protection in the event that our software fails to conform to its written specifications. These agreements typically contain provisions intended to limit the nature and extent of our risk of warranty and product liability claims, however there is a risk that a court might interpret these terms in a limited way or could hold part or all of these terms to be unenforceable. Furthermore, some of our licenses with our customers are governed by non-U.S. law, and there is a risk that foreign law might provide us less or different protection. While we maintain general liability insurance, including coverage for errors and omissions, we cannot be sure that our existing coverage will continue to be available on reasonable terms or will be available in amounts sufficient to cover one or more large claims. Although we have not experienced any material warranty or product liability claims to date, a warranty or product liability claim, whether or not meritorious, could result in substantial costs and a diversion of management’s attention and our resources, which could have an adverse effect on our business, operating results and financial condition.

We could be adversely affected if we are unable to protect our proprietary technology and could be subject to litigation regarding our intellectual property rights, causing serious harm to our business

We rely upon a combination of patent, copyright and trademark laws and non-disclosure and other intellectual property contractual arrangements to protect our proprietary rights. However, we cannot assure you that our patents, pending applications for patents that may issue in the future, or other intellectual property will be of sufficient scope and strength to provide meaningful protection of our technology or any commercial advantage to us, or that the patents will not be challenged, invalidated or circumvented. We enter into agreements with our employees and customers that seek to limit and protect the distribution of proprietary information. Despite our efforts to safeguard and maintain our proprietary rights, there can be no assurance that such rights will remain protected or that we will be able to detect unauthorized use and take appropriate steps to enforce our intellectual property rights.

In recent years, there has been significant litigation in the United States involving patents and other intellectual property rights. We may be a party to litigation in the future to protect our intellectual property rights or as a result of an alleged infringement of the intellectual property rights of others. These claims, whether or not meritorious, could require us to spend significant sums in litigation, pay damages, delay product installments, develop non-infringing intellectual property or acquire licenses to intellectual property that is the subject of the infringement claim. These claims could have a material adverse effect on our business, operating results and financial condition.

We may incur significant costs from class action litigation as a result of expected volatility in our common stock

In the past, companies that have experienced market price volatility of their stock have been the targets of securities class action litigation. In August 2001, we were named as a party in one of the so-called “laddering”

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securities class action suits relating to the underwriting of our initial public offering. We could incur substantial costs and experience a diversion of our management’s attention and resources in connection with such litigation, which could have a material adverse effect on our business, financial condition and results of operations.

Our future financial results will depend on our ability to manage growth effectively

In the past, rapid growth has strained our managerial and other resources. Recently, we have undergone, and are currently experiencing, slowing growth rates due to economic conditions. If our historical growth rate resumes, our ability to manage such growth will depend in part on our ability to continue to enhance our operating, financial and management information systems. We cannot assure you that our personnel, systems and controls will be adequate to support future growth, if any. If we are unable to manage growth effectively, should it occur, the quality of our services, our ability to retain key personnel and our business, operating results and financial condition could be materially adversely affected.

Item 7A.    Quantitative and Qualitative Disclosures about Market Risk.

Interest rate risk

Our exposure to financial risk, including changes in interest rates, relates primarily to cash and cash equivalents. These investments bear interest at a variable interest rate, which is subject to market changes. We have not entered into any interest rate swap agreements, or other instruments to minimize our exposure to interest rate fluctuations. We have not had any derivative instruments in the past and do not presently plan to in the future. Our investment portfolio consists of demand deposit accounts, money market mutual funds and investment accounts. Due to the short-term average maturity of the investment portfolio, a sudden sharp change in interest rates would not have a material adverse effect on the value of the portfolio. Based on our investment portfolio and interest rates, a 100 basis point increase or decrease in interest rates would result in an increase or decrease of approximately $132,000, $259,000 and $258,000 for the fiscal years ended 2001, 2002 and 2003, respectively, in our results from operations and cash flows.

Foreign currency exchange rate risk

Since our acquisition of Bottomline Europe on August 28, 2000, we have had operations located in the United Kingdom, where the functional currency is British Pound Sterling (the Pound). We have not entered into any foreign currency hedging transactions or other instruments to minimize our exposure to foreign currency exchange rate fluctuations nor do we presently plan to in the future. Although the Pound has not historically experienced significant fluctuations over a short period of time, our financial results could be significantly affected by changes in foreign currency exchange rates. A 10% increase or decrease in the average exchange rate between the Pound and the dollar would result in an increase or decrease to revenue of approximately $2,655,000, $2,852,000, and $3,030,000 for the fiscal years ended June 30, 2001, 2002 and 2003, respectively. A 10% increase or decrease in the average exchange rate between the Pound and the dollar would result in an increase or decrease to net loss of approximately $2,062,000, $2,377,000, and $2,251,000 for the fiscal years ended June 30, 2001, 2002 and 2003, respectively.

Item 8.    Financial Statements and Supplementary Data.

Index to Financial Statements, Financial Statements and Supplementary Data appear on pages 43 to 69 of this Annual Report on Form 10-K.

Item 9.    Changes In and Disagreements With Accountants on Accounting and Financial Disclosure.

None.

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Item 9A.    Controls and Procedures

The Company’s management, with the participation of the Company’s chief executive officer and chief financial officer, evaluated the effectiveness of the Company’s disclosure controls and procedures (as defined in Rules 13a-15(e) and 15d-15(e) under the Exchange Act) as of June 30, 2003. Based on this evaluation, the Company’s chief executive officer and chief financial officer concluded that, as of June 30, 2003, the Company’s disclosure controls and procedures were (1) designed to ensure that material information relating to the Company, including its consolidated subsidiaries, is made known to the Company’s chief executive officer and chief financial officer by others within those entities, particularly during the period in which this report was being prepared and (2) effective, in that they provide reasonable assurance that information required to be disclosed by the Company in the reports that it files or submits under the Exchange Act is recorded, processed, summarized and reported within the time periods specified in the SEC’s rules and forms.

No change in the Company’s internal control over financial reporting (as defined in Rules 13a-15(f) and 15d-15(f) under the Exchange Act) occurred during the fiscal quarter ended June 30, 2003 that has materially affected, or is reasonably likely to materially affect, the Company’s internal control over financial reporting.

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PART III

Item 10.    Directors and Executive Officers of the Registrant.

See “Executive Officers and Other Key Employees of the Registrant” in Part I of this Annual Report on Form 10-K. We will furnish to the Securities and Exchange Commission a definitive Proxy Statement (the “Proxy Statement”) not later than 120 days after the close of the fiscal year ended June 30, 2003. The information required by this item is incorporated herein by reference to the information contained under the captions “Proposal I—Election of Directors” and “Section 16(a) Beneficial Ownership Reporting Compliance” of the Proxy Statement.

Item 11.    Executive Compensation.

The information required by this item is incorporated herein by reference to the information contained under the captions “Executive Compensation,” “Director Compensation,” “Compensation Committee Interlocks and Insider Participation,” “Stock Performance Graph,” “Employment and Severance Agreements” and “Report of the Compensation Committee on Executive Compensation” of the Proxy Statement.

The information required by this item is incorporated herein by reference to the information contained under the caption “Security Ownership of Certain Beneficial Owners and Management” and “Proposal 1—Election of Directors” of the Proxy Statement.

Item 13.    Certain Relationships and Related Transactions.

The information required by this item is incorporated herein by reference to the information contained under the caption “Certain Relationships and Related Transactions” of the Proxy Statement.

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PART IV

Item 15.    Exhibits, Financial Statement Schedules, and Reports on Form 8-K.

(a)  Financial Statements, Financial Statement Schedule and Exhibits

(b)  Reports on Form 8-K

We filed the following current reports on Form 8-K during the quarter ended June 30, 2003:

On April 29, 2003 we furnished a current report on Form 8-K dated April 29, 2003 under Item 9 containing a copy of our earnings release for the three and nine months ended March 31, 2003 pursuant to Item 12 (Results of Operations and Financial Condition).

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SCHEDULE II—VALUATION AND QUALIFYING ACCOUNTS

ALLOWANCE FOR DOUBTFUL ACCOUNTS AND RETURNS

Years Ended June 30, 2001, 2002 and 2003

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BOTTOMLINE TECHNOLOGIES (de), INC.

INDEX TO CONSOLIDATED FINANCIAL STATEMENTS

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REPORT OF INDEPENDENT AUDITORS

Board of Directors and Stockholders

Bottomline Technologies (de), Inc.

We have audited the accompanying consolidated balance sheets of Bottomline Technologies (de), Inc. as of June 30, 2002 and 2003, and the related consolidated statements of operations, stockholders’ equity and comprehensive loss, and cash flows for each of the three years in the period ended June 30, 2003. Our audits also included the consolidated financial statement schedule listed in the index at Item 15 (a). These financial statements and schedule are the responsibility of the Company’s management. Our responsibility is to express an opinion on these financial statements and schedule based on our audits.

We conducted our audits in accordance with auditing standards generally accepted in the United States. Those standards require that we plan and perform the audit to obtain reasonable assurance about whether the financial statements are free of material misstatement. An audit includes examining, on a test basis, evidence supporting the amounts and disclosures in the financial statements. An audit also includes assessing the accounting principles used and significant estimates made by management, as well as evaluating the overall financial statement presentation. We believe that our audits provide a reasonable basis for our opinion.

In our opinion, the financial statements referred to above present fairly, in all material respects, the consolidated financial position of Bottomline Technologies (de), Inc. at June 30, 2002 and 2003, and the consolidated results of its operations and its cash flows for each of the three years in the period ended June 30, 2003, in conformity with accounting principles generally accepted in the United States. Also, in our opinion, the related consolidated financial statement schedule, when considered in relation to the basic consolidated financial statements taken as a whole, presents fairly in all material respects the information set forth therein.

/s/ ERNST & YOUNG LLP

Boston, Massachusetts

July 30, 2003, except for Note 15,

as to which the date is September 18, 2003

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BOTTOMLINE TECHNOLOGIES (de), INC.

CONSOLIDATED BALANCE SHEETS