1. Round 13/08/2016 VfL Wolfsburg [Youth B] - 1. FC Magdeburg [Youth B] 1:1
2. Round 20/08/2016 1. FC Magdeburg [Youth B] - 1. FC Union Berlin [Youth B] 2:1
3. Round 28/08/2016 Hamburger SV [Youth B] - 1. FC Magdeburg [Youth B] 4:0
4. Round 03/09/2016 1. FC Magdeburg [Youth B] - Hansa Rostock [Youth B] 1:0
5. Round 17/09/2016 Eintracht Braunschweig [Youth B] - 1. FC Magdeburg [Youth B] 1:1
6. Round 24/09/2016 1. FC Magdeburg [Youth B] - TeBe Berlin [Youth B] 1:0
7. Round 08/10/2016 Hertha BSC [Youth B] - 1. FC Magdeburg [Youth B] 2:1 yellow card
8. Round 16/10/2016 1. FC Magdeburg [Youth B] - Holstein Kiel [Youth B] 0:4
9. Round 23/10/2016 1. FC Magdeburg [Youth B] - Werder Bremen [Youth B] 1:3
10. Round 29/10/2016 RB Leipzig [Youth B] - 1. FC Magdeburg [Youth B] 2:3
11. Round 04/11/2016 1. FC Magdeburg [Youth B] - Dynamo Dresden [Youth B] 3:1
12. Round 12/11/2016 FC St. Pauli [Youth B] - 1. FC Magdeburg [Youth B] 2:0
13. Round 27/11/2016 1. FC Magdeburg [Youth B] - Niendorfer TSV [Youth B] 5:1
14. Round 04/12/2016 1. FC Magdeburg [Youth B] - VfL Wolfsburg [Youth B] 1:0
15. Round 10/12/2016 1. FC Union Berlin [Youth B] - 1. FC Magdeburg [Youth B] 3:3
16. Round 17/12/2016 1. FC Magdeburg [Youth B] - Hamburger SV [Youth B] 1:1 yellow-red card
19. Round 04/03/2017 TeBe Berlin [Youth B] - 1. FC Magdeburg [Youth B] 1:2
20. Round 11/03/2017 1. FC Magdeburg [Youth B] - Hertha BSC [Youth B] 0:3
21. Round 18/03/2017 Holstein Kiel [Youth B] - 1. FC Magdeburg [Youth B] 5:1 Goal
22. Round 02/04/2017 Werder Bremen [Youth B] - 1. FC Magdeburg [Youth B] 5:0
23. Round 08/04/2017 1. FC Magdeburg [Youth B] - RB Leipzig [Youth B] 0:4 yellow-red card
17. Round 29/04/2017 Hansa Rostock [Youth B] - 1. FC Magdeburg [Youth B] 2:1 yellow card
25. Round 21/05/2017 1. FC Magdeburg [Youth B] - FC St. Pauli [Youth B] 2:1 Goal
26. Round 28/05/2017 Niendorfer TSV [Youth B] - 1. FC Magdeburg [Youth B] 0:1