| 6. Round | 10/09/2016 | Fortuna Köln | - | Chemnitzer FC | 1:0 | ||||
| 8. Round | 21/09/2016 | Fortuna Köln | - | Hansa Rostock | 0:2 | ||||
| 9. Round | 24/09/2016 | SG Sonnenhof Großaspach | - | Fortuna Köln | 2:3 | ||||
| 10. Round | 01/10/2016 | Fortuna Köln | - | Hallescher FC | 1:1 | ||||
| 11. Round | 16/10/2016 | FSV Frankfurt | - | Fortuna Köln | 6:0 | ||||
| 12. Round | 22/10/2016 | Fortuna Köln | - | VfR Aalen | 0:2 | ||||
| 13. Round | 29/10/2016 | Sportfreunde Lotte | - | Fortuna Köln | 0:1 | ||||
| 15. Round | 18/11/2016 | Fortuna Köln | - | FSV Zwickau | 2:1 | ||||
| 20. Round | 28/01/2017 | Fortuna Köln | - | 1. FC Magdeburg | 2:1 |
Germany