| 15. Round | 21/10/2006 | Carlisle United | - | Tranmere Rovers | 1:0 |  |
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| 28. Round | 13/01/2007 | Bristol City | - | Tranmere Rovers | 3:2 | ||||
| 32. Round | 10/02/2007 | Tranmere Rovers | - | Doncaster Rovers | 1:0 | ||||
| 33. Round | 17/02/2007 | Yeovil Town | - | Tranmere Rovers | 0:2 | ||||
| 35. Round | 24/02/2007 | Leyton Orient | - | Tranmere Rovers | 3:1 | ||||
| 39. Round | 24/03/2007 | AFC Bournemouth | - | Tranmere Rovers | 2:0 | ||||
| 41. Round | 07/04/2007 | Blackpool FC | - | Tranmere Rovers | 3:2 | ||||
| 42. Round | 09/04/2007 | Tranmere Rovers | - | Brighton & Hove Albion | 2:1 | ||||
| 43. Round | 14/04/2007 | Millwall FC | - | Tranmere Rovers | 2:2 | ||||
| 44. Round | 21/04/2007 | Tranmere Rovers | - | Scunthorpe United | 0:2 | ||||
| 45. Round | 28/04/2007 | Crewe Alexandra | - | Tranmere Rovers | 1:1 |  |
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| 46. Round | 05/05/2007 | Tranmere Rovers | - | Brentford FC | 3:1 | |
England