| 1. Round | 16/07/2016 | MFK Ružomberok | - | 1. FC Tatran Prešov | 1:0 |  |
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| 2. Round | 23/07/2016 | MŠK Žilina | - | MFK Ružomberok | 3:2 | |
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| 3. Round | 31/07/2016 | MFK Ružomberok | - | Spartak Trnava | 1:1 | |
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| 4. Round | 06/08/2016 | Spartak Myjava | - | MFK Ružomberok | annull. | ||||
| 5. Round | 13/08/2016 | MFK Ružomberok | - | Slovan Bratislava | 3:2 | ||||
| 6. Round | 21/08/2016 | AS Trenčín | - | MFK Ružomberok | 3:1 |  |
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| 7. Round | 27/08/2016 | MFK Ružomberok | - | MFK Zemplín Michalovce | 4:0 | ||||
| 9. Round | 17/09/2016 | MFK Ružomberok | - | Zlaté Moravce | 6:1 | ||||
| 10. Round | 24/09/2016 | FO ŽP Šport Podbrezová | - | MFK Ružomberok | 3:1 | ||||
| 11. Round | 01/10/2016 | MFK Ružomberok | - | FC DAC 1904 | 2:2 | |
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| 12. Round | 15/10/2016 | 1. FC Tatran Prešov | - | MFK Ružomberok | 2:1 | ||||
| 13. Round | 22/10/2016 | MFK Ružomberok | - | MŠK Žilina | 0:2 | ||||
| 14. Round | 29/10/2016 | Spartak Trnava | - | MFK Ružomberok | 0:1 | ||||
| 15. Round | 05/11/2016 | MFK Ružomberok | - | Spartak Myjava | annull. | ||||
| 16. Round | 20/11/2016 | Slovan Bratislava | - | MFK Ružomberok | 2:1 | ||||
| 17. Round | 27/11/2016 | MFK Ružomberok | - | AS Trenčín | 3:3 | |
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| 19. Round | 10/12/2016 | MFK Ružomberok | - | FK Senica | 2:1 | |
Slovakia