| 1. Round | 05/08/2006 | Peterborough United | - | Bristol Rovers | 4:1 |  |
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| 2. Round | 09/08/2006 | Boston United | - | Peterborough United | 0:1 | |
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| 3. Round | 12/08/2006 | Wrexham FC | - | Peterborough United | 0:0 | ||||
| 4. Round | 19/08/2006 | Peterborough United | - | Macclesfield Town | 3:1 | ||||
| 5. Round | 26/08/2006 | Notts County | - | Peterborough United | 0:0 | ||||
| 6. Round | 03/09/2006 | Peterborough United | - | Bury FC | 0:1 | ||||
| 22. Round | 16/12/2006 | Peterborough United | - | Chester City | 0:2 | ||||
| 23. Round | 23/12/2006 | Peterborough United | - | Lincoln City | 1:2 | ||||
| 24. Round | 26/12/2006 | Barnet FC | - | Peterborough United | 1:0 | ||||
| 25. Round | 30/12/2006 | Hartlepool United | - | Peterborough United | 1:0 | ||||
| 26. Round | 01/01/2007 | Peterborough United | - | Walsall FC | 0:2 | ||||
| 29. Round | 20/01/2007 | Peterborough United | - | Stockport County | 0:3 | ||||
| 30. Round | 27/01/2007 | Lincoln City | - | Peterborough United | 1:0 |
England