| 8. Round | 16/10/2016 | Dynamo Dresden [Youth] | - | FC St. Pauli [Youth] | 1:3 | ||||
| 9. Round | 22/10/2016 | FC St. Pauli [Youth] | - | Eintracht Braunschweig [Youth] | 2:1 | ||||
| 10. Round | 30/10/2016 | JFV Nordwest [Youth] | - | FC St. Pauli [Youth] | 1:3 |  |
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| 11. Round | 05/11/2016 | FC St. Pauli [Youth] | - | VfL Wolfsburg [Youth] | 0:2 | |
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| 13. Round | 27/11/2016 | FC St. Pauli [Youth] | - | Werder Bremen [Youth] | 1:0 | ||||
| 14. Round | 03/12/2016 | FC St. Pauli [Youth] | - | FC Carl Zeiss Jena [Youth] | 0:1 | ||||
| 15. Round | 10/12/2016 | RB Leipzig [Youth] | - | FC St. Pauli [Youth] | 7:1 | |
Germany
Turkey