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| Transfers |
 VfB Stuttgart 5,250,000 < >  Port Vale |
| WDV | > | Dennis SEIMEN | Gk | GER | 58 | 95 | 01/12/05 (20) | 86 | 1.90 | 89 | Port Vale | | 5520 | | | | 0 | 0 | 2380 | 0 | +4 | |
 FC Salzburg 6,250,000 < > Port Vale |
| IMN | > | Soumaila DIABATE | CM | MLI | 60 | 73 | 22/11/04 (21) | 86 | | | Port Vale | | 7790 | | | | 0 | 0 | 3995 | 0 | +4 | |
 Levante 4,000,000 < > Oldham Athletic |
| KAG | > | CARLOS Espí Escrihuela | CS | ESP | 55 | 71 | 24/07/05 (21) | 89 | 1.85 | 73 | Oldham Athletic | | 3280 | | | | 0 | 0 | 2240 | 0 | +2 | |
 Anderlecht 7,500,000 < > Birmingham City |
| NRU | > | Lucas Frédéric STASSIN | St | BEL | 61 | 91 | 29/11/04 (21) | 85 | 1.71 | 81 | Birmingham City | | 9240 | | | | 0 | 0 | 5375 | 2 | +4 | |
 PSV 4,500,000 < > Birmingham City |
| TMU | > | Yorbe VERTESSEN | RW/CS | BEL | 61 | 91 | 08/01/01 (25) | 90 | 1.76 | 65 | Birmingham City | | 8800 | | | | 0 | 0 | 3150 | 3 | +3 | |
| Truro City < > 240,000 Doncaster Rovers |
| PIW | < | Jay McGRATH | CB | ENG | 48 | 1 | 15/04/03 (23) | 95 | 1.85 | 75 | Truro City | | | | | | | | 335 | | | |
| Doncaster Rovers < > 9,000,000 Sunderland |
| COC | < | Bart VERBRUGGEN | Gk | NED | 66 | 45 | 18/08/02 (24) | 90 | 1.93 | 75 | Doncaster Rovers | 6.92 | 24420 | 16 | | | 0 | 0 | 5440 | 0 | +4 | |
| Eintr. Frankfurt 6,500,000 < > Doncaster Rovers |
| FQY | > | Nathaniel BROWN | LB | GER | 65 | 66 | 16/06/03 (23) | 90 | 1.73 | 60 | Doncaster Rovers | | 19900 | | | | 0 | 0 | 4520 | 0 | +4 | |
 Dunfermline 155,000 < > Coventry City |
| GNG | > | Jeremiah CHILOKOA-MULLEN | CB | SCO | 42 | 84 | 17/06/04 (22) | 91 | | | Coventry City | | 520 | | | | 0 | 0 | 115 | 0 | +4 | |
| 450,000 < > Coventry City |
| ORC | > | Louie COPLEY | CM/AM | ENG | 41 | 99 | 20/10/06 (20) | 96 | | | Coventry City | | 230 | | | | 0 | 0 | 240 | 0 | Y | |
| Celtic 16,000,000 < > Rushden&Diamonds |
| XXO | > | JOĂO Pedro Gonçalves NEVES | CM | POR | 68 | 85 | 27/09/04 (22) | 85 | 1.74 | 66 | Rushden&Diamonds | | 40940 | | | | 0 | 0 | 11340 | 1 | +4 | |
 Libertad < > 1,850,000 Rushden&Diamonds |
| KTG | < | Enso David GONZÁLEZ Medina | St | PAR | 54 | 15 | 20/01/05 (21) | 94 | 1.69 | 69 | Libertad | | | | | | | | 1935 | | | |
 Nice 2,555,000 < > Bolton Wanderers |
| QLV | > | Kail BOUDACHE | RW | ALG | 41 | 97 | 15/06/06 (20) | 87 | 1.75 | 65 | Bolton Wanderers | | 240 | | | | 0 | 0 | 240 | 0 | Y | |
 Napoli 2,555,000 < > Bolton Wanderers |
| PNM | > | Matija POPOVIC | AM/LW | SRB | 38 | 78 | 08/01/06 (20) | 90 | | | Bolton Wanderers | | 160 | | | | 0 | 0 | 135 | 0 | Y | |
 Sion 5,050,000 < > Bolton Wanderers |
| HKU | > | Winsley BOTELI | St | SUI | 44 | 95 | 05/07/06 (20) | 89 | | | Bolton Wanderers | | 330 | | | | 0 | 0 | 480 | 0 | Y | |
| 755,000 < > Colchester United |
| MRO | > | Tommy SETFORD | Gk | ENG | 37 | 77 | 13/03/06 (20) | 95 | 1.85 | 76 | Colchester United | | 130 | | | | 0 | 0 | 60 | 0 | Y | |
| 1,555,000 < > Colchester United |
| RWS | > | Jake EVANS | RW | ENG | 45 | 94 | 01/01/08 (18) | 94 | | | Colchester United | | 410 | | | | 0 | 0 | 575 | 0 | Y | |
| 1,355,000 < > Colchester United |
| PTR | > | Cameron ASHIA | LW | ENG | 47 | 90 | 08/10/06 (20) | 87 | 1.75 | 67 | Colchester United | | 580 | | | | 0 | 0 | 645 | 0 | Y | |
| 550,000 < > MK Dons |
| MGB | > | Caylan VICKERS | AM | ENG | 50 | 97 | 22/12/04 (21) | 91 | | | MK Dons | | 1590 | | | | 0 | 0 | 915 | 0 | +2 | |
| 1,555,000 < > MK Dons |
| QAR | > | Tegan FINN | RW/AM | ENG | 46 | 89 | 17/03/08 (18) | 90 | | | MK Dons | | 470 | | | | 0 | 0 | 670 | 0 | Y | |
| 555,000 < > MK Dons |
| VTY | > | Michael GOLDING | CM | ENG | 40 | 88 | 23/05/06 (20) | 98 | | | MK Dons | | 210 | | | | 0 | 0 | 200 | 0 | Y | |
| Brentford 8,750,000 < > Bury |
| LNG | > | Yehor YARMOLYUK | CM | UKR | 63 | 93 | 01/03/04 (22) | 90 | 1.76 | 65 | Bury | 6.42 | 12740 | | | | 0 | 0 | 5580 | 4 | +4 | |
| Arsenal 5,250,000 < > Bury |
| GEA | > | GABRIEL Fernando de JESUS | St | BRA | 63 | 98 | 03/04/97 (29) | 91 | 1.78 | 73 | Bury | 6.73 | 12240 | | | | 3 | 0 | 3815 | 13 | +4 | |
| 6,150,000 < > Walsall |
| FNL | > | Tyler FLETCHER | CM/DM | SCO | 46 | 81 | 19/03/07 (19) | 98 | 1.83 | 75 | Walsall | | 450 | | | | 0 | 0 | 610 | 0 | Y | |
| 1,100,000 < > Walsall |
| SMX | > | Ryan ONÉ | AM | SCO | 48 | 84 | 26/06/06 (20) | 92 | 1.88 | 74 | Walsall | | 1080 | | | | 0 | 0 | 750 | 0 | +1 | |
| 450,000 < > Rochdale |
| XDK | > | Aodhán DOHERTY | LW/AM | NIR | 42 | 85 | 03/05/06 (20) | 92 | | | Rochdale | | 250 | | | | 0 | 0 | 285 | 0 | Y | |
| Carlisle United 8,750,000 < > Rochdale |
| YNJ | > | Lewis KOUMAS | W/AM | WAL | 57 | 99 | 19/09/05 (21) | 90 | | | Rochdale | 6.62 | 5480 | | | | 2 | 1 | 2580 | 7 | +4 | |
| 205,000 < > Crewe Alexandra |
| TAT | > | Malachi BOATENG | DM | ENG | 50 | 82 | 05/07/02 (24) | 91 | | | Crewe Alexandra | | 1470 | | | | 0 | 0 | 405 | 0 | +1 | |
 Raków Czestochowa 1,415,000 < > Peterborough Utd |
| YFM | > | Vladan KOVACEVIC | Gk | BIH | 58 | 89 | 11/04/98 (28) | 90 | 1.86 | 78 | Peterborough Utd | | 5590 | | | | 0 | 0 | 1145 | 0 | +1 | |
| Auxerre 3,450,000 < > Preston North End |
| MMZ | > | Theo BAIR | St | CAN | 60 | 69 | 27/08/99 (27) | 93 | 1.93 | 97 | Preston North End | | 8220 | | | | 0 | 0 | 2805 | 0 | +1 | |
| Loan/transfer listed |
| VSY | - | Oliver BURKE | W/St | SCO | 60 | 98 | 07/04/97 (29) | 94 | 1.89 | 75 | Port Vale | 7.10 | 5080 | | | T | 6 | 1 | 2100 | 24 | | |
| LCW | 11 | Abdellah OUAZANE | LW | MAR | 55 | 94 | 15/01/09 (17) | 83 | | | Coventry City | | 830 | | | T | 0 | 0 | 2695 | 1 | +1 | |
| AOP | - | Sam McCALLUM | LB | ENG | 55 | 95 | 02/09/00 (26) | 92 | 1.77 | 68 | Rushden&Diamonds | 7.22 | 3140 | | | T | 2 | 0 | 810 | 0 | | |
| BLK | - | Ciaron BROWN | CB/LB | NIR | 56 | 94 | 14/01/98 (28) | 96 | 1.85 | 76 | Rushden&Diamonds | 7.24 | 4030 | | | T | 0 | 0 | 825 | 1 | | |
| POP | - | Lewis WARD | Gk | ENG | 40 | 93 | 05/03/97 (29) | 86 | 1.96 | 81 | Walsall | | 460 | | | T | 0 | 0 | F/t | 0 | | |
| MGG | - | CARLOS MIGUEL dos Santos Pereira | Gk | BRA | 60/61 | 93 | 09/10/98 (28) | 78 | | | Rochdale | 6.83 | 1980 | | | T | 0 | 0 | 1790 | 0 | | |
| Released |
| SLO | 16 | Theo VASSELL | CB | ENG | 41 | 8 | 02/01/97 (29) | 88 | 1.84 | 68 | Kettering Town | | | | | | | | F/t | | | |
| BPM | 16 | Loick AYINA | CB/RB | CGO | 39 | 14 | 20/04/03 (23) | 83 | 1.83 | 75 | Alta | | | | | | | | 25 | | | |
| RXZ | 16 | Maxime BIAMOU Ngapmou Yoke | CS | FRA | 42 | 12 | 13/11/90 (35) | 83 | 1.85 | 82 | Hertha Berlin II | | | | | | | | F/t | | | |
| ZSR | 16 | Louis JOHN | CB | ENG | 40 | 12 | 19/04/94 (32) | 87 | 1.90 | 85 | (no club) | | | 5 | | | | | F/t | | | |
| YGU | 16 | Andy CANNON | AM | ENG | 45 | 9 | 14/03/96 (30) | 99 | 1.76 | 74 | Fleetwood Town | | | 2 | | | | | 135 | | | |
