| 1. Round | 06/08/2016 | Shrewsbury Town | - | Milton Keynes Dons | 0:1 | ||||
| 4. Round | 20/08/2016 | Shrewsbury Town | - | Chesterfield FC | 2:1 | ||||
| 5. Round | 27/08/2016 | Shrewsbury Town | - | Gillingham FC | 2:3 | ||||
| 8. Round | 17/09/2016 | Shrewsbury Town | - | Scunthorpe United | 0:1 | ||||
| 9. Round | 24/09/2016 | AFC Wimbledon | - | Shrewsbury Town | 1:1 | ||||
| 10. Round | 27/09/2016 | Shrewsbury Town | - | Peterborough United | 1:1 | ||||
| 11. Round | 01/10/2016 | Shrewsbury Town | - | Swindon Town | 1:1 | ||||
| 15. Round | 22/10/2016 | Shrewsbury Town | - | Northampton Town | 2:4 | ||||
| 17. Round | 12/11/2016 | Shrewsbury Town | - | Oxford United | 2:0 |  |
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| 18. Round | 19/11/2016 | Sheffield United | - | Shrewsbury Town | 2:1 | ||||
| 19. Round | 22/11/2016 | Fleetwood Town | - | Shrewsbury Town | 3:0 | ||||
| 20. Round | 26/11/2016 | Shrewsbury Town | - | Port Vale FC | 0:0 | ||||
| 31. Round | 11/02/2017 | Scunthorpe United | - | Shrewsbury Town | 0:1 | ||||
| 34. Round | 25/02/2017 | Milton Keynes Dons | - | Shrewsbury Town | 2:1 | ||||
| 39. Round | 17/03/2017 | Port Vale FC | - | Shrewsbury Town | 2:1 | ||||
| 44. Round | 17/04/2017 | Northampton Town | - | Shrewsbury Town | 1:1 |
England