| 5. Jornada | 29.08.2016 | FC Fastav Zlín | - | MFK Karviná | 3:0 | ||||
| 6. Jornada | 09.09.2016 | 1. FC Slovácko | - | FC Fastav Zlín | 1:3 |  |
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| 7. Jornada | 19.09.2016 | FC Fastav Zlín | - | Sparta Praga | 1:1 | ||||
| 8. Jornada | 24.09.2016 | FC Hradec Králové | - | FC Fastav Zlín | 0:2 | ||||
| 9. Jornada | 01.10.2016 | FC Fastav Zlín | - | FK Jablonec | 2:2 | |
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| 10. Jornada | 15.10.2016 | FK Teplice | - | FC Fastav Zlín | 2:0 | ||||
| 11. Jornada | 21.10.2016 | FC Fastav Zlín | - | Bohemians Praha 1905 | 1:1 | ||||
| 12. Jornada | 29.10.2016 | FK Mladá Boleslav | - | FC Fastav Zlín | 1:2 | |
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| 13. Jornada | 05.11.2016 | FC Fastav Zlín | - | Zbrojovka Brno | 2:1 | |
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| 14. Jornada | 18.11.2016 | Vysočina Jihlava | - | FC Fastav Zlín | 1:3 | ||||
| 15. Jornada | 26.11.2016 | FC Fastav Zlín | - | FK Dukla Praha | 0:1 | ||||
| 16. Jornada | 02.12.2016 | FC Fastav Zlín | - | Slavia Praga | 0:4 |
Bosnia y Herzegovina