| 19. Round | 02/02/2003 | LR Ahlen | - | FC St. Pauli | 3:2 | ||||
| 20. Round | 09/02/2003 | FC St. Pauli | - | VfB Lübeck | 2:0 | ||||
| 21. Round | 14/02/2003 | Eintracht Braunschweig | - | FC St. Pauli | 0:1 | ||||
| 22. Round | 23/02/2003 | FC St. Pauli | - | 1. FC Union Berlin | 2:2 |  |
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| 23. Round | 28/02/2003 | 1. FSV Mainz 05 | - | FC St. Pauli | 1:1 | ||||
| 24. Round | 07/03/2003 | FC St. Pauli | - | Waldhof Mannheim | 2:1 | |
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| 25. Round | 16/03/2003 | Rot-Weiß Oberhausen | - | FC St. Pauli | 3:0 | ||||
| 26. Round | 21/03/2003 | FC St. Pauli | - | SSV Reutlingen | 1:2 | ||||
| 28. Round | 13/04/2003 | SC Freiburg | - | FC St. Pauli | 1:1 | ||||
| 29. Round | 17/04/2003 | FC St. Pauli | - | SpVgg Greuther Fürth | 1:1 | ||||
| 30. Round | 28/04/2003 | 1. FC Köln | - | FC St. Pauli | 2:1 | |
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| 31. Round | 02/05/2003 | FC St. Pauli | - | Wacker Burghausen | 2:2 |
Germany