| 1. Round | 21/07/2012 | FC Ismaning | - | Würzburger Kickers | 2:0 | ||||
| 2. Round | 25/07/2012 | FC Augsburg II | - | FC Ismaning | 2:3 |  |
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| 3. Round | 28/07/2012 | FC Ismaning | - | SpVgg Bayern Hof | 0:1 | ||||
| 4. Round | 04/08/2012 | SV Heimstetten | - | FC Ismaning | 1:1 | ||||
| 5. Round | 08/08/2012 | FC Ismaning | - | TSV 1860 München II | 1:0 | ||||
| 6. Round | 11/08/2012 | SC Eltersdorf | - | FC Ismaning | 0:0 | ||||
| 7. Round | 14/08/2012 | FC Ismaning | - | FC Memmingen | 0:0 |  |
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| 10. Round | 02/09/2012 | 1. FC Nürnberg II | - | FC Ismaning | 0:0 | ||||
| 11. Round | 08/09/2012 | FC Ismaning | - | TSV Buchbach | 0:0 | |
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| 14. Round | 30/09/2012 | Bayern München II | - | FC Ismaning | 2:0 | |
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| 15. Round | 03/10/2012 | FV Illertissen | - | FC Ismaning | 1:1 | ||||
| 16. Round | 06/10/2012 | FC Ismaning | - | SpVgg Greuther Fürth II | 1:3 | ||||
| 17. Round | 13/10/2012 | Viktoria Aschaffenburg | - | FC Ismaning | 1:1 | |
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| 18. Round | 20/10/2012 | FC Ismaning | - | TSV 1896 Rain | 5:1 | ||||
| 20. Round | 03/11/2012 | Würzburger Kickers | - | FC Ismaning | 0:5 | ||||
| 21. Round | 10/11/2012 | FC Ismaning | - | FC Augsburg II | 1:2 | |
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| 22. Round | 17/11/2012 | SpVgg Bayern Hof | - | FC Ismaning | 2:1 |
Germany