Form 10-K/A SECURITIES AND EXCHANGE COMMISSION Washington, D.C. 20549 [x] Annual report pursuant to Section 13 or 15(d) of the Securities Exchange Act of 1934 for fiscal year ended September 27, 1998; or [ ] Transition report pursuant to Section 13 or 15 (d) of the Securities Exchange Act of 1934 for the transition period from _____________ to ________________. Commission file number: 0-19797 WHOLE FOODS MARKET, INC. (Exact name of registrant as specified in its charter) Texas 74-1989366 (State of (IRS employment incorporation) identification no.) 601 North Lamar Street Suite 300 Austin, Texas 78703 (Address of principal executive offices) (Zip Code) Registrant's telephone number, including area code: 512-477-4455 Securities registered pursuant to Section 12(b) of the Act: None Securities registered pursuant to section 12(g) of the Act: Common Stock, no par value $307,807,000 Principal Amount At Maturity of Zero Coupon Convertible Subordinated Debentures Due 2018 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. [ ] The aggregate market value of the voting stock held by non-affiliates of the registrant on November 30, 1998 was approximately $1.2 billion. The number of shares of the registrant's common stock, no par value, outstanding as of November 30, 1998 was approximately 26,555,000. The following document is incorporated by reference into the part of this annual report on Form 10-K as indicated: None 2 SIGNATURE Pursuant to the requirements of the Securities Exchange Act of 1934, the registrant has duly caused this amendment to this report to be signed on its behalf by the undersigned hereunto duly authorized. WHOLE FOODS MARKET, INC. Date: February 10, 1999 By: /s/ GLENDA FLANAGAN ---------------------------------------- Glenda Flanagan, Chief Financial Officer 3 INDEX TO EXHIBITS ----------------- Exhibits - -------- 2.1 Agreement and Plan of Merger, among the Registrant, WFM Colorado Acquisition, Inc., Allegro Coffee Company, Inc. and the shareholders of Allegro Coffee Company, Inc. (4) 2.2 Agreement and Plan of Merger, among the Inc., the Merchant of Vino companies, and the Registrant, Whole Foods Market Group, stockholders of the Merchant of Vino Companies. (4) 3.1 Restated Articles of Incorporation of the Registrant, as amended (2) 3.2 By-laws of the Registrant adopted May 23, 1995 (8) 4.1 Form of Zero Coupon Convertible Subordinated Debentures Due 2018. (5) 4.2 Indentures between the Company and Chase Bank of Texas, National Association, as Trustee. (5) 4.3 Registration Rights Agreement by and among the Company and BT Alex Brown Incorporated and Morgan Stanley & Co. Incorporated. (5) 10.1 1987 Stock Option and Incentive Plan for Employees (3) 10.2 1987 Stock Option Plan for Outside Directors (3) 10.3 1993 Team Member Stock Ownership Plan (1) 10.5 Form of Retention Agreement between the executive officers of the Registrant and the Registrant (3) 10.6 Form of amendment to Retention Agreement (1) 10.7 Amended and Restated Loan Agreement, dated December 27, 1994, by and among the Registrant, the subsidiaries of the Registrant and Texas Commerce Bank National Association (8) 10.8 First Amendment dated May 16, 1996 to Amended and Restated Loan Agreement, dated December 27, 1994, by and among Registrant, the subsidiaries of the Registrant and Texas Commerce Bank National Association (9) 10.9 Second Amendment dated December 24, 1996 to Amended and Restated Loan Agreement, dated December 27, 1994, by and among Registrant, the subsidiaries of the Registrant and Texas Commerce Bank National Association (10) E-1 10.10 Third Amendment dated March 24, 1997 to Amended and Restated Loan Agreement, dated December 27, 1994, by and among Registrant, the subsidiaries of the Registrant and Texas Commerce Bank National Association (10) 10.11 Fourth Amendment dated September 2, 1997 to Amended and Restated Loan Agreement, dated December 27, 1994, by and among Registrant, the subsidiaries of the Registrant and Texas Commerce Bank National Association (10) 10.12 Fifth Amendment dated December 19, 1997 to Amended and Restated Loan Agreement, dated December 27, 1994, by and among Registrant, the subsidiaries of the Registrant and Texas Commerce Bank National Association (11) 10.13 1992 Stock Option Plan for Team Members, as amended (1) 10.14 1992 Stock Option Plan for Outside Directors (1) 10.15 1993 Team Member Stock Purchase Plan (1) 10.16 Second Amended and Restated 1991 Stock Incentive Plan of Fresh Fields Markets, Inc. with amendments thereto (6) 10.17 1994 Director Stock Option Plan with amendments thereto (6) 10.18 Non-Qualified Stock Option Plan of Amrion, Inc. (7) 10.19 1994 Non-Employee Director Stock Option Plan of Amrion, Inc. (7) 12.1 Computation of Ratio of Earnings to Fixed Charges (12) 21.1 Subsidiaries of the Registrant (11) 23.1 Consent of KPMG Peat Marwick LLP (11) 27.1 Financial Data Schedule (11) - -------------------- (1) Filed as an exhibit to Registration Statement on Form S-4 (No. 33-63824) and incorporated herein by reference. (2) Filed as an exhibit to Registration Statement on Form S-3 (No.33-69362) and incorporated herein by reference. (3) Filed as an exhibit to Registration Statement on Form S-1 (No. 33-44214) and incorporated herein by reference. (4) Filed as an exhibit to Registration Statement on Form S-3 (No. 333-43555) and incorporated herein by reference. (5) Filed as an exhibit to Registration Statement on Form S-3 (No. 333-51419) and incorporated herein by reference. E-2 (6) Filed as an exhibit to Registration Statement on Form S-8 (No. 33-11273) and incorporated herein by reference. (7) Filed as an exhibit to Registration Statement on Form S-8 (No. 33-35809) and incorporated herein by reference. (8) Filed as an exhibit to Registrant's Form 10-K for year ended September 24, 1995 and incorporated herein by reference. (9) Filed as an exhibit to Registrant's Form 10-K for year ended September 29, 1996 and incorporated herein by reference. (10) Filed as an exhibit to Registrant's Form 10-K for year ended September 28, 1997 and incorporated herein by reference. (11) Previously filed. (12) Filed herewith E-3