| 1. Round | 14/07/2012 | AS Trenčín | - | FC Nitra | 5:0 | ||||
| 3. Round | 28/07/2012 | Zlaté Moravce | - | FC Nitra | 0:2 | ||||
| 4. Round | 04/08/2012 | Spartak Myjava | - | FC Nitra | 0:2 | ||||
| 7. Round | 25/08/2012 | FC Nitra | - | MFK Košice | 4:1 | ||||
| 10. Round | 21/09/2012 | Slovan Bratislava | - | FC Nitra | 5:2 | ||||
| 12. Round | 06/10/2012 | FC Nitra | - | AS Trenčín | 1:2 |  |
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| 13. Round | 20/10/2012 | MFK Ružomberok | - | FC Nitra | 2:1 | ||||
| 14. Round | 27/10/2012 | FC Nitra | - | Zlaté Moravce | 1:1 | ||||
| 18. Round | 24/11/2012 | MFK Košice | - | FC Nitra | 4:0 | |
Slovakia