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| Transfers |
 Milton Keynes 4,550,000 < > Exeter City |
| KOH | > | Dominik KOHR | DM | GER | 63 | 96 | 31/01/94 (24) | 89 | 1.83 | 75 | Exeter City | 7.17 | 14940 | | | | 0 | 0 | 3025 | 0 | +4 | |
 Östersund < > 760,000 Exeter City |
| LZL | < | Matt GRIMES | CM | ENG | 49 | 2 | 15/07/95 (22) | 88 | 1.78 | 70 | Östersund | | | | | | | | 700 | | | |
 Valenciennes 1,750,000 < > Plymouth Argyle |
| NFW | > | Adrien TAMEZE Aoutsa | DM | FRA | 60 | 97 | 04/02/94 (24) | 92 | 1.80 | 78 | Plymouth Argyle | | 8500 | | | | 0 | 0 | 1955 | 0 | +3 | |
| LPY | < | Patrick OLSEN | DM | DEN | 54 | 2 | 23/04/94 (24) | 88 | 1.78 | 75 | Valenciennes | | | | | | | | 785 | | | |
 Girona 4,100,000 < > Plymouth Argyle |
| IPJ | > | PERE PONS Riera | CM | ESP | 61 | 92 | 20/02/93 (25) | 87 | 1.77 | 67 | Plymouth Argyle | | 9250 | | | | 0 | 0 | 3150 | 0 | +3 | |
| Rennes 600,000 < > QPR |
| QLZ | > | Jérémy GÉLIN | CB | FRA | 58 | 96 | 24/04/97 (21) | 89 | | | QPR | | 6980 | | | | 0 | 0 | 2030 | 0 | +4 | |
| ZTA | < | Steve COOK | CB | ENG | 62 | 1 | 19/04/91 (27) | 94 | 1.85 | 82 | Rennes | | | | | | | | 2200 | | | |
| Saint-Étienne < > 1,400,000 Crystal Palace |
| KLP | < | Gaël CLICHY | LWB | FRA | 63 | 15 | 26/07/85 (32) | 90 | 1.74 | 63 | Saint-Étienne | | | | | | | | 1475 | | | |
| Tranmere Rovers 1,920,000 < > Watford |
| QFV | > | Ryan SHAWCROSS | CB | ENG | 63 | 94 | 14/10/87 (30) | 92 | 1.90 | 88 | Watford | | 13540 | | | | 1 | 0 | 2070 | 0 | +2 | |
| Brřndby 300,000 < > FC Halifax |
| OSX | > | Jens Stryger LARSEN | RB | DEN | 61 | 90 | 21/02/91 (27) | 88 | 1.80 | 74 | FC Halifax | | 10520 | | | | 0 | 0 | 1900 | 0 | +4 | |
| DQV | < | Frederik SŘRENSEN | CB/RB | DEN | 62 | 9 | 14/04/92 (26) | 90 | 1.93 | 80 | Brřndby | | | | | | | | 2340 | | | |
| Malmö FF 2,400,000 < > FC Halifax |
| WTZ | > | Mattias SVANBERG | DM | SWE | 55 | 82 | 05/01/99 (19) | 85 | | | FC Halifax | | 2180 | | | | 0 | 0 | 1570 | 0 | Y | |
 Racing Club 3,500,000 < > Chelsea |
| OEV | > | Federico Matías ZARACHO | AM | ARG | 56 | 97 | 10/03/98 (20) | 86 | 1.68 | 60 | Chelsea | | 5530 | | | | 0 | 0 | 2450 | 0 | +4 | |
 Al-Hilal 7,000,000 < > Chelsea |
| JJG | > | José Paulo Bezerra Maciel Júnior, PAULINHO | CM | BRA | 65 | 76 | 25/07/88 (29) | 88 | 1.80 | 71 | Chelsea | | 22200 | | | | 0 | 0 | 4380 | 0 | +4 | |
| Lorient 2,750,000 < > Swansea City |
| RYC | > | Mattéo GUENDOUZI | CM | FRA | 54 | 96 | 14/04/99 (19) | 87 | 1.80 | 68 | Swansea City | | 1840 | | | | 0 | 0 | 1995 | 0 | Y | |
 FC Porto B 12,780,000 < > Swansea City |
| BSW | > | José DIOGO DALOT Teixeira | RB/RM | POR | 50 | 86 | 18/03/99 (19) | 88 | 1.83 | 76 | Swansea City | | 1010 | | | | 0 | 0 | 745 | 0 | Y | |
 Fiorentina 1,400,000 < > Manchester City |
| CXY | > | Petko HRISTOV | RB/CB | BUL | 52 | 98 | 01/03/99 (19) | 84 | 1.91 | 79 | Manchester City | | 1380 | | | | 0 | 0 | 1005 | 0 | Y | |
 SV Ried 7,800,000 < > Manchester City |
| ASZ | > | Konrad LAIMER | CM/RB | AUT | 62 | 80 | 27/05/97 (20) | 81 | 1.79 | 68 | Manchester City | | 6010 | | | | 0 | 0 | 5825 | 0 | Y | |
 Lechia Gdansk 5,200,000 < > Manchester City |
| SPT | > | Alessandro SCHÖPF | AM/W | AUT | 62 | 96 | 07/02/94 (24) | 86 | 1.78 | 75 | Manchester City | | 11860 | | | | 0 | 0 | 3855 | 0 | +4 | |
| 1,750,000 < > Blackburn Rovers |
| ZBB | > | Dale STEPHENS | CM/LM | ENG | 61 | 88 | 12/06/89 (28) | 94 | 1.70 | 71 | Blackburn Rovers | | 10220 | | | | 0 | 0 | 2615 | 0 | +3 | |
| York City < > 400,000 Bristol Rovers |
| GPB | < | Képler Laveran Lima Ferreira, PEPE | CB/DM | POR | 64 | 99 | 26/02/83 (35) | 91 | 1.86 | 72 | York City | 7.06 | 16280 | | | | 4 | 0 | 270 | 1 | +1 | |
| Grimsby Town 7,500,000 < > Port Vale |
| ADX | > | Victor MOSES | RWB/RW | NGA | 65 | 88 | 12/12/90 (27) | 92 | 1.80 | 75 | Port Vale | | 22800 | | | | 2 | 0 | 3395 | 1 | +3 | |
| WJZ | < | Connor WICKHAM | St | ENG | 60 | 95 | 31/03/93 (25) | 93 | 1.82 | 89 | Grimsby Town | | 8930 | | | | 0 | 0 | 3165 | 0 | | |
| NUT | < | Dwight GAYLE | St | ENG | 61 | 92 | 20/10/90 (27) | 82 | 1.77 | 73 | Grimsby Town | | 10320 | | | | 0 | 0 | 3250 | 0 | | |
| Stoke City < > 1,770,000 Bury |
| CKP | < | Danny SIMPSON | RB | ENG | 63 | 94 | 04/01/87 (31) | 95 | 1.75 | 72 | Stoke City | | 12040 | | | | 2 | 0 | 1910 | 0 | +2 | |
 Queen of the Sth. < > Bury |
| JIF | < | Jack RUDDY | Gk | SCO | 41 | 94 | 27/12/97 (20) | 87 | | | Bury | | 240 | | | | 0 | 0 | 160 | 0 | Y | (t.19, Queen of the Sth.) |
| 750,000 < > Bristol City |
| LJX | > | George HONEYMAN | AM | ENG | 53 | 97 | 08/09/94 (23) | 94 | 1.73 | 72 | Bristol City | | 2830 | | | | 0 | 0 | 1145 | 0 | +3 | |
| Aldershot Town < > 530,000 Crewe Alexandra |
| XJG | < | Karlan AHEARNE-GRANT | CS | ENG | 44 | 12 | 19/12/97 (20) | 88 | 1.83 | 70 | Aldershot Town | | | | | | | | 480 | | | |
| Bari < > 1,610,000 Crewe Alexandra |
| DIW | < | Mattia VITALE | CM | ITA | 52 | 1 | 01/10/97 (20) | 84 | 1.80 | 68 | Bari | | | | | | | | 1365 | | | |
| Mansfield Town 4,000,000 < > Leyton Orient |
| TID | > | Hans HATEBOER | RB | NED | 62 | 99 | 04/01/94 (24) | 89 | 1.87 | 81 | Leyton Orient | 7.29 | 11060 | | | | 1 | 0 | 2620 | 2 | +3 | |
| 1,330,000 < > Rotherham United |
| JEC | > | Florent HADERGJONAJ | RB | SUI | 60 | 84 | 31/07/94 (23) | 93 | 1.82 | 72 | Rotherham United | | 8270 | | | | 0 | 0 | 2210 | 0 | +1 | |
| Loan/transfer listed |
| LWC | - | Ben OSBORN | LM/CM | ENG | 55 | 95 | 05/08/94 (23) | 94 | 1.76 | 75 | Peterborough Utd | | 3120 | | | T | 2 | 0 | 1550 | 0 | +2 | |
| Released |
| ELM | 16 | Juan Manuel ITURBE Arévalos | W | PAR | 58/60 | 12 | 04/06/93 (24) | 76 | 1.72 | 64 | Tijuana | | | | | | | | 2880 | | | |
| BKV | 16 | XABIER PRIETO Argarate | CM/RM | ESP | 64 | 15 | 29/08/83 (34) | 89 | 1.85 | 74 | Tenerife | | | | | | | | 1100 | | | |
| Loan callbacks |
| OEW | - | Harry SOUTTAR | CB | SCO | 42 | 97 | 22/10/98 (19) | 89 | 1.98 | 80 | Port Vale | | 310 | | | | 0 | 0 | 195 | 0 | Y | |
