| 2. Round | 09/08/2003 | Rot-Weiss Essen | - | Werder Bremen II | 1:1 | ||||
| 3. Round | 16/08/2003 | Werder Bremen II | - | Chemnitzer FC | 0:0 | ||||
| 5. Round | 29/08/2003 | Werder Bremen II | - | FC Schalke 04 II | 3:1 | ||||
| 6. Round | 07/09/2003 | Borussia Dortmund II | - | Werder Bremen II | 2:1 | ||||
| 7. Round | 13/09/2003 | Werder Bremen II | - | Sachsen Leipzig | 2:1 | ||||
| 9. Round | 27/09/2003 | Preußen Münster | - | Werder Bremen II | 0:2 | ||||
| 10. Round | 04/10/2003 | Werder Bremen II | - | VfR Neumünster | 2:1 | ||||
| 13. Round | 24/10/2003 | SG Wattenscheid 09 | - | Werder Bremen II | 1:6 |  |
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| 14. Round | 02/11/2003 | Werder Bremen II | - | FC St. Pauli | 1:0 | |
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| 15. Round | 08/11/2003 | Dynamo Dresden | - | Werder Bremen II | 2:0 | |
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| 17. Round | 22/11/2003 | Hamburger SV II | - | Werder Bremen II | 1:2 | ||||
| 18. Round | 28/11/2003 | Holstein Kiel | - | Werder Bremen II | 1:3 | ||||
| 19. Round | 07/12/2003 | Werder Bremen II | - | Rot-Weiss Essen | 2:0 | |
Germany