| 2. Round | 14/08/2016 | Würzburger Kickers | - | 1. FC Kaiserslautern | 1:1 | ||||
| 3. Round | 26/08/2016 | 1. FC Heidenheim 1846 | - | Würzburger Kickers | 1:2 | ||||
| 7. Round | 25/09/2016 | Dynamo Dresden | - | Würzburger Kickers | 2:2 |  |
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| 10. Round | 21/10/2016 | Würzburger Kickers | - | Karlsruher SC | 0:2 | ||||
| 20. Round | 11/02/2017 | Würzburger Kickers | - | 1. FC Heidenheim 1846 | 0:2 | ||||
| 22. Round | 24/02/2017 | Würzburger Kickers | - | SpVgg Greuther Fürth | 1:1 | ||||
| 24. Round | 11/03/2017 | Würzburger Kickers | - | Dynamo Dresden | 0:2 | ||||
| 27. Round | 04/04/2017 | Karlsruher SC | - | Würzburger Kickers | 1:1 | ||||
| 28. Round | 07/04/2017 | Würzburger Kickers | - | Hannover 96 | 0:0 | |
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| 30. Round | 23/04/2017 | Würzburger Kickers | - | 1. FC Nürnberg | 1:1 | |
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| 31. Round | 30/04/2017 | Erzgebirge Aue | - | Würzburger Kickers | 3:1 | ||||
| 32. Round | 06/05/2017 | Fortuna Düsseldorf | - | Würzburger Kickers | 1:1 | |
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| 34. Round | 21/05/2017 | VfB Stuttgart | - | Würzburger Kickers | 4:1 |
Hungary