| 2. Round | 21/08/2016 | FC Gütersloh 2000 | - | FCE Rheine | 0:2 | ||||
| 3. Round | 28/08/2016 | TSV Marl-Hüls | - | FC Gütersloh 2000 | 3:2 | ||||
| 4. Round | 04/09/2016 | FC Gütersloh 2000 | - | SC Hassel | 2:0 | ||||
| 5. Round | 11/09/2016 | SpVgg Erkenschwick | - | FC Gütersloh 2000 | 0:0 |  |
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| 7. Round | 25/09/2016 | FC Gütersloh 2000 | - | Arminia Bielefeld II | 4:2 | ||||
| 8. Round | 02/10/2016 | SV Lippstadt 08 | - | FC Gütersloh 2000 | 1:1 | ||||
| 11. Round | 23/10/2016 | FC Gütersloh 2000 | - | TuS Ennepetal | 3:1 | ||||
| 12. Round | 30/10/2016 | FC Brünninghausen | - | FC Gütersloh 2000 | 0:0 | ||||
| 13. Round | 06/11/2016 | FC Gütersloh 2000 | - | 1. FC Kaan-Marienborn | 2:0 | ||||
| 14. Round | 13/11/2016 | SC Paderborn 07 II | - | FC Gütersloh 2000 | 3:1 | ||||
| 18. Round | 05/02/2017 | FC Gütersloh 2000 | - | Hammer SpVg | 0:3 | ||||
| 23. Round | 19/03/2017 | ASC 09 Dortmund | - | FC Gütersloh 2000 | 1:1 | ||||
| 28. Round | 17/04/2017 | TuS Ennepetal | - | FC Gütersloh 2000 | 2:1 | ||||
| 29. Round | 23/04/2017 | FC Gütersloh 2000 | - | FC Brünninghausen | 1:1 | ||||
| 30. Round | 30/04/2017 | 1. FC Kaan-Marienborn | - | FC Gütersloh 2000 | 1:0 | ||||
| 32. Round | 14/05/2017 | SuS Stadtlohn | - | FC Gütersloh 2000 | 1:1 |
Germany