| 7. Round | 13/09/2013 | Southend United | - | Scunthorpe United | 0:1 | ||||
| 8. Round | 21/09/2013 | Scunthorpe United | - | Plymouth Argyle | 1:0 |  |
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| 9. Round | 28/09/2013 | Burton Albion | - | Scunthorpe United | 2:2 | ||||
| 10. Round | 05/10/2013 | Scunthorpe United | - | Cheltenham Town | 2:0 | ||||
| 12. Round | 19/10/2013 | Scunthorpe United | - | Exeter City | 0:4 | ||||
| 13. Round | 22/10/2013 | Fleetwood Town | - | Scunthorpe United | 0:1 | |
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| 14. Round | 26/10/2013 | Scunthorpe United | - | Hartlepool United | 1:0 | ||||
| 11. Round | 29/10/2013 | York City | - | Scunthorpe United | 4:1 | ||||
| 15. Round | 02/11/2013 | Chesterfield FC | - | Scunthorpe United | 1:1 | ||||
| 16. Round | 16/11/2013 | Scunthorpe United | - | Accrington Stanley | 0:2 |
Ireland