| 1. Round | 13/08/2016 | Carmarthen Town | - | Connah's Quay Nomads | 0:0 | ||||
| 2. Round | 21/08/2016 | Bangor City | - | Connah's Quay Nomads | 0:2 | ||||
| 3. Round | 28/08/2016 | Connah's Quay Nomads | - | Newtown AFC | 1:0 |  |
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| 4. Round | 31/08/2016 | Cefn Druids | - | Connah's Quay Nomads | 0:0 | ||||
| 5. Round | 03/09/2016 | Connah's Quay Nomads | - | Bala Town | 1:1 | ||||
| 8. Round | 20/09/2016 | Connah's Quay Nomads | - | Llandudno FC | 1:1 | ||||
| 9. Round | 25/09/2016 | Connah's Quay Nomads | - | Rhyl FC | 2:0 | |
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| 10. Round | 02/10/2016 | Connah's Quay Nomads | - | Carmarthen Town | 1:0 | ||||
| 12. Round | 16/10/2016 | Connah's Quay Nomads | - | Bangor City | 2:2 | |
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| 13. Round | 23/10/2016 | Connah's Quay Nomads | - | Cardiff Metropolitan | 0:0 | ||||
| 14. Round | 30/10/2016 | The New Saints | - | Connah's Quay Nomads | 3:0 | ||||
| 15. Round | 05/11/2016 | Aberystwyth Town | - | Connah's Quay Nomads | 1:3 | ||||
| 21. Round | 30/12/2016 | Connah's Quay Nomads | - | Airbus UK | 5:1 | ||||
| 22. Round | 14/01/2017 | Bala Town | - | Connah's Quay Nomads | 0:0 |
England
