| 1. Round | 21/07/2012 | FC Ismaning | - | Würzburger Kickers | 2:0 | ||||
| 2. Round | 25/07/2012 | FC Augsburg II | - | FC Ismaning | 2:3 | ||||
| 3. Round | 28/07/2012 | FC Ismaning | - | SpVgg Bayern Hof | 0:1 | ||||
| 4. Round | 04/08/2012 | SV Heimstetten | - | FC Ismaning | 1:1 |  |
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| 5. Round | 08/08/2012 | FC Ismaning | - | TSV 1860 München II | 1:0 | |
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| 6. Round | 11/08/2012 | SC Eltersdorf | - | FC Ismaning | 0:0 | ||||
| 7. Round | 14/08/2012 | FC Ismaning | - | FC Memmingen | 0:0 | ||||
| 8. Round | 18/08/2012 | FC Ingolstadt 04 II | - | FC Ismaning | 2:2 | ||||
| 9. Round | 25/08/2012 | FC Ismaning | - | TSV 1860 Rosenheim | 3:0 | ||||
| 10. Round | 02/09/2012 | 1. FC Nürnberg II | - | FC Ismaning | 0:0 | ||||
| 11. Round | 08/09/2012 | FC Ismaning | - | TSV Buchbach | 0:0 | ||||
| 17. Round | 13/10/2012 | Viktoria Aschaffenburg | - | FC Ismaning | 1:1 | ||||
| 18. Round | 20/10/2012 | FC Ismaning | - | TSV 1896 Rain | 5:1 | ||||
| 20. Round | 03/11/2012 | Würzburger Kickers | - | FC Ismaning | 0:5 | |
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| 21. Round | 10/11/2012 | FC Ismaning | - | FC Augsburg II | 1:2 | ||||
| 19. Round | 13/11/2012 | SV Seligenporten | - | FC Ismaning | 0:2 |  |
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| 22. Round | 17/11/2012 | SpVgg Bayern Hof | - | FC Ismaning | 2:1 | |
Germany