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| Transfers |
 Fortuna Sittard < > 750,000  Morecambe |
| PMI | < | Daniel SVENSSON | LB | SWE | 55 | 3 | 12/02/02 (22) | 89 | | | Fortuna Sittard | | | | | | | | 1175 | | | |
 Aris < > 2,240,000 Morecambe |
| VTK | < | Unai VENCEDOR Paris | CM | ESP | 59 | 1 | 15/11/00 (23) | 87 | 1.75 | 73 | Aris | | | | | | | | 2805 | | | |
| Arsenal 12,900,000 < > Newcastle United |
| PVL | > | PAU Francisco TORRES | CB | ESP | 67 | 96 | 16/01/97 (27) | 90 | 1.92 | 81 | Newcastle United | | 32860 | | | | 1 | 0 | 4505 | 0 | +1 | |
| Hartlepool United 10,000,000 < > Newcastle United |
| VIR | > | Orkun KÖKÇÜ | CM/AM | TUR | 65 | 99 | 29/12/00 (23) | 86 | 1.75 | 70 | Newcastle United | | 21800 | | | | 0 | 0 | 6680 | 0 | +1 | |
 Sporting Braga < > 2,820,000 Reading |
| TXO | < | Armindo Tue Na Bangna, BRUMA | W/WS | POR | 63 | 14 | 24/10/94 (30) | 87 | 1.73 | 68 | Sporting Braga | | | | | | | | 3040 | | | |
| Altrincham 150,000 < > Reading |
| XBF | > | Kahrel REDDIN | W | ENG | 37 | 74 | 13/01/04 (20) | 95 | | | Reading | | 140 | | | | 0 | 0 | 105 | 0 | Y | |
 Dunfermline 500,000 < > Cheltenham Town |
| NJZ | > | Kane RITCHIE-HOSLER | CS | ENG | 44 | 93 | 13/09/02 (22) | 93 | | | Cheltenham Town | | 690 | | | | 0 | 0 | 370 | 0 | +4 | |
| Airdrieonians 600,000 < > Cheltenham Town |
| NCX | > | Ben WILSON | CS | NIR | 45 | 94 | 05/12/01 (22) | 87 | | | Cheltenham Town | | 790 | | | | 0 | 0 | 440 | 0 | +4 | |
| Hamilton 300,000 < > Cheltenham Town |
| PHU | > | Fergus OWENS | CB | SCO | 44 | 94 | 12/05/03 (21) | 88 | | | Cheltenham Town | | 670 | | | | 0 | 0 | 215 | 0 | +4 | |
 Al-Riyadh < > 830,000 Sheffield United |
| VNI | < | Lys MOUSSET | CS | FRA | 53 | 9 | 08/02/96 (28) | 89 | 1.84 | 73 | Al-Riyadh | | | | | | | | 895 | | | |
| Rennes < > 430,000 Sheffield United |
| ZOY | < | Adam DAVIES | Gk | WAL | 53 | 15 | 17/07/92 (32) | 85 | 1.85 | 75 | Rennes | | | | | | | | 385 | | | |
| Aldershot Town 250,000 < > Sheffield United |
| AEF | > | Jaden DIXON | CB/RB | ENG | 40 | 71 | 07/02/07 (17) | 91 | | | Sheffield United | | 220 | | | | 0 | 0 | 170 | 0 | Y | |
| Oxford United < > 530,000 Bradford City |
| UHN | < | Aji ALESE | CB | ENG | 52 | 95 | 17/01/01 (23) | 91 | 1.85 | 70 | Oxford United | | 2030 | | | | 1 | 0 | 655 | 0 | +1 | |
 FC Cincinnati < > 1,820,000 Bradford City |
| TFB | < | Dexter LEMBIKISA | LWB | JAM | 57 | 0 | 04/11/03 (21) | 90 | 1.80 | 68 | FC Cincinnati | | | | | | | | 1755 | | | |
 Jagiellonia < > 2,360,000 Forest Green |
| EEB | < | Bojan MIOVSKI | CS | MKD | 61 | 1 | 24/06/99 (25) | 87 | | | Jagiellonia | | | | | | | | 3670 | | | |
| Hearts < > 3,580,000 Forest Green |
| NPY | < | Callum McGREGOR | CM/AM | SCO | 64 | 2 | 14/06/93 (31) | 93 | 1.78 | 67 | Hearts | | | | | | | | 3255 | | | |
| Hearts 2,250,000 < > Forest Green |
| RRO | > | Cameron DEVLIN | CM | AUS | 57 | 88 | 07/06/98 (26) | 86 | 1.76 | 78 | Forest Green | | 4790 | | | | 0 | 0 | 1640 | 0 | +4 | |
 Union SG 2,750,000 < > Stevenage |
| VGG | > | Mohammed FUSEINI | W | GHA | 56 | 96 | 16/05/02 (22) | 91 | | | Stevenage | | 4670 | | | | 0 | 0 | 2015 | 0 | +4 | |
 1.FC Köln 5,750,000 < > Stevenage |
| ASU | > | Toluwalase Emmanuel AROKODARE | CS | NGA | 61 | 83 | 23/11/00 (23) | 91 | | | Stevenage | | 10520 | | | | 0 | 0 | 4375 | 0 | +4 | |
| 40,000 < > Stevenage |
| ECU | > | Harrison MURRAY-CAMPBELL | CB | ENG | 38 | 92 | 04/08/06 (18) | 90 | | | Stevenage | | 160 | | | | 0 | 0 | 90 | 0 | Y | |
| Anderlecht < > 2,130,000 FC Halifax |
| QMN | < | Filip BUNDGAARD | LW/WS | DEN | 55 | 12 | 03/07/04 (20) | 86 | 1.76 | 62 | Anderlecht | | | | | | | | 2115 | | | |
| Groene Ster < > 90,000 Portsmouth |
| MZN | < | Salah-Eddine OULAD M'HAND | CM | NED | 40 | 1 | 20/08/03 (21) | 85 | | | Groene Ster | | | | | | | | 170 | | | |
| Woking < > 350,000 Millwall |
| HSM | < | Tyreece JOHN-JULES | CS/AM | ENG | 46 | 10 | 14/02/01 (23) | 86 | 1.83 | 75 | Woking | | | | | | | | 445 | | | |
| Sporting Braga < > 3,020,000 Leeds United |
| CIB | < | Mohamed CAMARA | DM/CM | MLI | 63 | 0 | 06/01/00 (24) | 90 | 1.69 | 65 | Sporting Braga | | | | | | | | 3025 | | | |
| Bordeaux 4,000,000 < > Leeds United |
| JGY | > | Dilane BAKWA | W | FRA | 61 | 94 | 26/08/02 (22) | 81 | 1.79 | 75 | Leeds United | | 11320 | | | | 0 | 0 | 4180 | 0 | +4 | |
| WLJ | < | Yari VERSCHAEREN | CM | BEL | 61 | 1 | 12/07/01 (23) | 86 | 1.72 | 63 | Bordeaux | | | | | | | | 3755 | | | |
 SK Sturm Graz < > 4,020,000 Blackburn Rovers |
| TTH | < | Zeki AMDOUNI | CS | SUI | 61 | 13 | 04/12/00 (23) | 90 | 1.83 | 80 | SK Sturm Graz | | | | | | | | 4375 | | | |
| Southampton 250,000 < > Blackburn Rovers |
| YHU | > | Kami DOYLE | AM | ENG | 38 | 87 | 01/08/05 (19) | 91 | | | Blackburn Rovers | | 160 | 2 | | | 0 | 0 | 155 | 0 | Y | |
| 1,500,000 < > Blackburn Rovers |
| GFT | > | Karoy ANDERSON | CM/DM | JAM | 49 | 89 | 01/10/04 (20) | 89 | | | Blackburn Rovers | | 670 | | | | 0 | 0 | 870 | 0 | Y | |
 Puebla < > 1,960,000 York City |
| NOL | < | Yerry Fernando MINA González | CB | COL | 62 | 14 | 23/09/94 (30) | 86 | 1.93 | 75 | Puebla | | | 6 | | | | | 1785 | | | |
| Watford < > 910,000 York City |
| IIP | < | Kion ETETE | CS | ENG | 53 | 97 | 28/11/01 (22) | 86 | 1.85 | 70 | Watford | | 2960 | | | | 1 | 0 | 1505 | 0 | +2 | |
| Arsenal 1,500,000 < > York City |
| PNZ | > | Edin DZEKO | CS | BIH | 65 | 89 | 17/03/86 (38) | 91 | 1.92 | 80 | York City | | 20600 | | | | 3 | 0 | F/t | 0 | +4 | |
| Rangers < > 2,140,000 Swindon Town |
| SES | < | Ben DAVIES | LB/CB | WAL | 64 | 15 | 24/04/93 (31) | 94 | 1.70 | 76 | Rangers | | | | | | | | 2215 | | | |
 Graficar 750,000 < > Port Vale |
| DVI | > | Andrija MAKSIMOVIC | AM | SRB | 44 | 82 | 05/06/07 (17) | 93 | | | Port Vale | | 370 | | | | 0 | 0 | 545 | 0 | Y | |
| Yeovil Town 2,800,000 < > Port Vale |
| HKP | > | Cher NDOUR | CM | ITA | 54/55 | 91 | 27/07/04 (20) | 79 | 1.90 | 83 | Port Vale | | 2300 | | | | 0 | 0 | 2115 | 0 | Y | |
| Birmingham City 8,000,000 < > QPR |
| UAJ | > | Maxence CAQUERET | CM | FRA | 65 | 96 | 15/02/00 (24) | 90 | 1.74 | 63 | QPR | | 23200 | | | | 1 | 0 | 5940 | 0 | +3 | |
| Chicago Fire < > 3,220,000 QPR |
| QXF | < | Djibril SOW | CM | SUI | 63 | 0 | 06/02/97 (27) | 83 | 1.84 | 70 | Chicago Fire | | | | | | | | 3745 | | | |
| Lommel SK 4,805,000 < > Hereford |
| RUB | > | Koki SAITO | W | JPN | 61 | 93 | 10/08/01 (23) | 89 | 1.70 | 61 | Hereford | | 9690 | | | | 0 | 0 | 3755 | 0 | +1 | |
| Loan/transfer listed |
| AER | - | Moussa DIABY | W/AM | FRA | 64 | 98 | 07/07/99 (25) | 88 | 1.70 | 65 | Norwich City | | 25620 | | | T | 0 | 0 | 4875 | 0 | | |
| JAC | - | Zidan SERTDEMIR | CM | DEN | 45 | 95 | 04/02/05 (19) | 83 | 1.82 | 71 | FC Halifax | | 490 | | | T | 0 | 0 | 525 | 0 | Y | |
| BIP | - | Myron BOADU | CS | NED | 61 | 95 | 14/01/01 (23) | 87 | 1.80 | 67 | Shrewsbury Town | | 10020 | | | T | 3 | 0 | 4375 | 0 | +1 | |
| Released |
| QKP | 16 | Andy CARROLL | CS | ENG | 48 | 13 | 06/01/89 (35) | 93 | 1.93 | 69 | Bordeaux | | | | | | | | F/t | | | |
| OMO | 16 | MIGUEL SILVEIRA dos Santos | CS | BRA | 53/54 | 14 | 26/03/03 (21) | 78 | | | PFC Sochi | | | | | | | | 1935 | | | |
| DCB | 16 | Lion SEMIC | RB | GER | 45 | 11 | 13/09/03 (21) | 82 | | | VfL Osnabrück | | | | | | | | 260 | | | |
