| 2. Round | 14/08/2009 | 1. FC Magdeburg | - | Hamburger SV II | 0:0 | ||||
| 6. Round | 06/09/2009 | 1. FC Magdeburg | - | SV Wilhelmshaven | 5:2 |  |
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| 7. Round | 12/09/2009 | SV Babelsberg 03 | - | 1. FC Magdeburg | 3:2 | ||||
| 10. Round | 04/10/2009 | 1. FC Magdeburg | - | Goslarer SC | 2:1 | ||||
| 12. Round | 23/10/2009 | 1. FC Magdeburg | - | Hertha BSC II | 3:0 | ||||
| 13. Round | 01/11/2009 | Chemnitzer FC | - | 1. FC Magdeburg | 1:1 | ||||
| 21. Round | 17/02/2010 | Hansa Rostock II | - | 1. FC Magdeburg | 1:0 | ||||
| 22. Round | 23/02/2010 | 1. FC Magdeburg | - | VFC Plauen | 0:1 | ||||
| 24. Round | 14/03/2010 | 1. FC Magdeburg | - | SV Babelsberg 03 | 0:1 | ||||
| 28. Round | 11/04/2010 | 1. FC Magdeburg | - | FC St. Pauli II | 1:0 | ||||
| 23. Round | 28/04/2010 | SV Wilhelmshaven | - | 1. FC Magdeburg | 1:2 | ||||
| 32. Round | 09/05/2010 | 1. FC Magdeburg | - | FC Oberneuland | 5:0 | |
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| 33. Round | 22/05/2010 | TeBe Berlin | - | 1. FC Magdeburg | 3:4 | ||||
| 34. Round | 29/05/2010 | 1. FC Magdeburg | - | ZFC Meuselwitz | 1:1 |
Germany