| 25. Round | 29/12/2012 | Tranmere Rovers | - | Scunthorpe United | 1:0 | ||||
| 28. Round | 12/01/2013 | Colchester United | - | Scunthorpe United | 1:2 | ||||
| 31. Round | 02/02/2013 | Crewe Alexandra | - | Scunthorpe United | 1:0 | ||||
| 43. Round | 06/04/2013 | Preston North End | - | Scunthorpe United | 3:0 | ||||
| 44. Round | 13/04/2013 | Scunthorpe United | - | Walsall FC | 1:1 | ||||
| 38. Round | 16/04/2013 | Bury FC | - | Scunthorpe United | 2:1 | ||||
| 45. Round | 20/04/2013 | Milton Keynes Dons | - | Scunthorpe United | 0:1 | ||||
| 46. Round | 27/04/2013 | Scunthorpe United | - | Swindon Town | 3:1 |
England