| 3. Round | 12/08/2006 | Werder Bremen II | - | Kickers Emden | 2:1 | ||||
| 4. Round | 19/08/2006 | FC St. Pauli | - | Werder Bremen II | 2:1 | ||||
| 22. Round | 17/02/2007 | Kickers Emden | - | Werder Bremen II | 4:2 |  |
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| 20. Round | 21/02/2007 | SV Wilhelmshaven | - | Werder Bremen II | 2:1 | ||||
| 21. Round | 28/02/2007 | Werder Bremen II | - | Bayer Leverkusen II | 1:0 | ||||
| 24. Round | 03/03/2007 | Hamburger SV II | - | Werder Bremen II | 0:3 | ||||
| 27. Round | 24/03/2007 | Werder Bremen II | - | Rot Weiss Ahlen | 0:2 | ||||
| 29. Round | 31/03/2007 | Werder Bremen II | - | Fortuna Düsseldorf | 2:0 | ||||
| 30. Round | 07/04/2007 | Rot-Weiß Erfurt | - | Werder Bremen II | 1:1 |  |
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| 31. Round | 14/04/2007 | Werder Bremen II | - | Dynamo Dresden | 1:1 | ||||
| 32. Round | 20/04/2007 | 1. FC Magdeburg | - | Werder Bremen II | 2:0 | ||||
| 23. Round | 24/04/2007 | Werder Bremen II | - | FC St. Pauli | 0:2 | ||||
| 33. Round | 28/04/2007 | Werder Bremen II | - | Wuppertaler SV | 1:2 | ||||
| 38. Round | 02/06/2007 | Werder Bremen II | - | 1. FC Union Berlin | 3:2 | |
Germany