| 5-Aug-06 | Port Vale | Away | League | 0-3 | | 5631 | |
| 8-Aug-06 | Millwall | Home | League | 2-0 | Steele, Alexander | 6142 | |
| 12-Aug-06 | AFC Bournemouth | Home | League | 3-2 | Alexander, Steele (2) | 4474 | |
| 19-Aug-06 | Carlisle United | Away | League | 1-3 | Steele | 7160 | |
| 24-Aug-06 | West Bromwich Albion | Home | LC r1 | 0-3 | | 3058 | |
| 26-Aug-06 | Swansea City | Home | League | 0-1 | | 4162 | |
| 2-Sep-06 | Tranmere Rovers | Away | League | 0-3 | | 6446 | |
| 9-Sep-06 | Brentford | Home | League | 1-1 | Simpson | 5420 | |
| 12-Sep-06 | Bristol City | Away | League | 1-2 | Lockwood (pen) | 9726 | |
| 16-Sep-06 | Brighton & Hove Albion | Away | League | 1-4 | Lockwood (pen) | 6003 | |
| 23-Sep-06 | Rotherham United | Home | League | 2-3 | Chambers, Miller | 4063 | |
| 26-Sep-06 | Gillingham | Home | League | 3-3 | Lockwood (3, 1 pen) | 4648 | |
| 30-Sep-06 | Blackpool | Away | League | 0-3 | | 5298 | |
| 7-Oct-06 | Chesterfield | Home | League | 0-0 | | 4309 | |
| 14-Oct-06 | Oldham Athletic | Away | League | 3-3 | Ibehre, Alexander (2) | 5014 | |
| 21-Oct-06 | Cheltenham Town | Home | League | 2-0 | Alexander, Lockwood (pen) | 4500 | |
| 28-Oct-06 | Scunthorpe United | Away | League | 1-3 | Easton | 4795 | |
| 1-Nov-06 | Bristol City | Home | JPT s.r2 | 1-3 | Duncan | 1118 | |
| 4-Nov-06 | Doncaster Rovers | Away | League | 0-0 | | 5447 | |
| 11-Nov-06 | Notts County | Home | FAC r1 | 2-1 | Corden, Miller | 3011 | |
| 18-Nov-06 | Yeovil Town | Home | League | 0-0 | | 4842 | |
| 2-Dec-06 | Torquay United | Away | FAC r2 | 1-1 | Corden | 2392 | |
| 5-Dec-06 | Bradford City | Home | League | 1-2 | Thelwell | 3529 | |
| 9-Dec-06 | Huddersfield Town | Home | League | 1-0 | Alexander | 4300 | |
| 12-Dec-06 | Torquay United | Home | FAC r2r | 1-2 | Walker | 2384 | |
| 16-Dec-06 | Nottingham Forest | Away | League | 3-1 | Gutteridge, Chambers, Corden | 23109 | |
| 19-Dec-06 | Northampton Town | Away | League | 1-0 | Connor | 4728 | |
| 23-Dec-06 | Crewe Alexandra | Home | League | 1-1 | Lockwood (pen) | 4371 | |
| 26-Dec-06 | Gillingham | Away | League | 1-2 | Walker | 8216 | |
| 30-Dec-06 | Rotherham United | Away | League | 2-2 | Chambers, Alexander | 4715 | |
| 1-Jan-07 | Bristol City | Home | League | 1-1 | Lockwood (pen) | 4814 | |
| 13-Jan-07 | Brentford | Away | League | 2-2 | Ibehre, Connor | 6765 | |
| 20-Jan-07 | Blackpool | Home | League | 0-1 | | 5217 | |
| 27-Jan-07 | Crewe Alexandra | Away | League | 4-0 | Chambers, Corden, Ibehre, Tudor | 5280 | |
| 3-Feb-07 | Port Vale | Home | League | 2-1 | Lockwood, Ibehre | 4295 | |
| 10-Feb-07 | AFC Bournemouth | Away | League | 0-5 | | 5985 | |
| 13-Feb-07 | Brighton & Hove Albion | Home | League | 1-4 | Demetriou | 4670 | |
| 17-Feb-07 | Carlisle United | Home | League | 1-1 | Lockwood | 4449 | |
| 20-Feb-07 | Millwall | Away | League | 5-2 | Alexander, Jarvis (3), Walker | 10356 | |
| 24-Feb-07 | Tranmere Rovers | Home | League | 3-1 | Miller, Jarvis (2) | 4832 | |
| 3-Mar-07 | Swansea City | Away | League | 0-0 | | 12901 | |
| 10-Mar-07 | Chesterfield | Away | League | 1-0 | Tudor | 3665 | |
| 17-Mar-07 | Oldham Athletic | Home | League | 2-2 | Alexander, Hooper | 5443 | |
| 24-Mar-07 | Scunthorpe United | Home | League | 2-2 | Corden, Hooper | 5869 | |
| 31-Mar-07 | Cheltenham Town | Away | League | 1-2 | Alexander | 4300 | |
| 7-Apr-07 | Northampton Town | Home | League | 0-2 | | 5459 | |
| 9-Apr-07 | Yeovil Town | Away | League | 1-2 | Jarvis | 4206 | |
| 14-Apr-07 | Doncaster Rovers | Home | League | 1-1 | Alexander | 4697 | |
| 21-Apr-07 | Bradford City | Away | League | 2-0 | Alexander, Tann | 10665 | |
| 28-Apr-07 | Nottingham Forest | Home | League | 1-3 | Lockwood | 7206 | |
| 5-May-07 | Huddersfield Town | Away | League | 1-3 | Demetriou | 10842 | |