| 6. Round | 29/09/2012 | 1. FC Lok Leipzig | - | FC Carl Zeiss Jena | 1:0 | ||||
| 1. Round | 03/10/2012 | FSV Zwickau | - | FC Carl Zeiss Jena | 0:0 | ||||
| 7. Round | 07/10/2012 | FC Carl Zeiss Jena | - | Optik Rathenow | 3:0 | ||||
| 10. Round | 04/11/2012 | ZFC Meuselwitz | - | FC Carl Zeiss Jena | 0:0 | ||||
| 11. Round | 09/11/2012 | FC Carl Zeiss Jena | - | VFC Plauen | 0:0 | ||||
| 13. Round | 23/11/2012 | FC Carl Zeiss Jena | - | Torgelower SV Greif | 2:1 | ||||
| 14. Round | 02/12/2012 | RB Leipzig | - | FC Carl Zeiss Jena | 1:1 | ||||
| 15. Round | 08/12/2012 | FC Carl Zeiss Jena | - | Energie Cottbus II | 2:0 |  |
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| 17. Round | 24/04/2013 | 1. FC Magdeburg | - | FC Carl Zeiss Jena | 2:1 |
Germany