| 1. Round | 14/07/2012 | Slovan Bratislava | - | 1. FC Tatran Prešov | 2:1 | ||||
| 2. Round | 22/07/2012 | 1. FC Tatran Prešov | - | FK Senica | 2:0 | ||||
| 3. Round | 28/07/2012 | AS Trenčín | - | 1. FC Tatran Prešov | 2:1 |  |
|||
| 8. Round | 01/09/2012 | Spartak Myjava | - | 1. FC Tatran Prešov | 2:0 | ||||
| 9. Round | 15/09/2012 | 1. FC Tatran Prešov | - | MFK Košice | 0:0 | ||||
| 10. Round | 22/09/2012 | MŠK Žilina | - | 1. FC Tatran Prešov | 3:0 | ||||
| 11. Round | 29/09/2012 | 1. FC Tatran Prešov | - | Spartak Trnava | 2:1 | ||||
| 12. Round | 06/10/2012 | 1. FC Tatran Prešov | - | Slovan Bratislava | 0:0 | ||||
| 13. Round | 20/10/2012 | FK Senica | - | 1. FC Tatran Prešov | 2:0 | ||||
| 14. Round | 27/10/2012 | 1. FC Tatran Prešov | - | AS Trenčín | 1:2 | ||||
| 23. Round | 29/03/2013 | Slovan Bratislava | - | 1. FC Tatran Prešov | 5:0 | ||||
| 24. Round | 02/04/2013 | 1. FC Tatran Prešov | - | FK Senica | 0:1 | ||||
| 28. Round | 27/04/2013 | 1. FC Tatran Prešov | - | FC Nitra | 0:1 | ||||
| 29. Round | 04/05/2013 | FK Dukla Banská Bystrica | - | 1. FC Tatran Prešov | 0:0 | ||||
| 30. Round | 11/05/2013 | Spartak Myjava | - | 1. FC Tatran Prešov | 2:0 | |
|||
| 31. Round | 18/05/2013 | 1. FC Tatran Prešov | - | MFK Košice | 0:0 |
Slovakia