| 2. Round | 26/08/2016 | Tarxien Rainbows | - | Birkirkara FC | 0:4 | ||||
| 12. Round | 19/11/2016 | St. Andrews FC | - | Birkirkara FC | 1:1 |  |
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| 13. Round | 26/11/2016 | Birkirkara FC | - | Tarxien Rainbows | 3:1 | ||||
| 14. Round | 04/12/2016 | Hamrun Spartans | - | Birkirkara FC | 2:0 | ||||
| 15. Round | 11/12/2016 | Birkirkara FC | - | Sliema Wanderers | 1:2 | ||||
| 16. Round | 04/01/2017 | Mosta FC | - | Birkirkara FC | 0:2 | ||||
| 17. Round | 08/01/2017 | Birkirkara FC | - | Pembroke Athleta FC | 2:0 | ||||
| 18. Round | 15/01/2017 | Balzan FC | - | Birkirkara FC | 1:1 | ||||
| 23. Round | 25/02/2017 | Birkirkara FC | - | St. Andrews FC | 2:2 | ||||
| 32. Round | 30/04/2017 | Gżira United | - | Birkirkara FC | 1:1 |
Malta