| 1. Round | 13/08/2016 | 1. FC Union Berlin [Youth B] | - | Hertha BSC [Youth B] | 1:1 | ||||
| 2. Round | 20/08/2016 | 1. FC Magdeburg [Youth B] | - | 1. FC Union Berlin [Youth B] | 2:1 | ||||
| 3. Round | 27/08/2016 | 1. FC Union Berlin [Youth B] | - | Werder Bremen [Youth B] | 0:4 | ||||
| 4. Round | 03/09/2016 | RB Leipzig [Youth B] | - | 1. FC Union Berlin [Youth B] | 9:0 | ||||
| 6. Round | 25/09/2016 | FC St. Pauli [Youth B] | - | 1. FC Union Berlin [Youth B] | 1:1 | ||||
| 7. Round | 08/10/2016 | 1. FC Union Berlin [Youth B] | - | Niendorfer TSV [Youth B] | 2:3 | ||||
| 11. Round | 06/11/2016 | Hansa Rostock [Youth B] | - | 1. FC Union Berlin [Youth B] | 2:1 | ||||
| 17. Round | 19/02/2017 | 1. FC Union Berlin [Youth B] | - | RB Leipzig [Youth B] | 2:6 |
Germany