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| Transfers |
 Liverpool 6,705,000 < >  Sporting Braga |
| FRN | > | Diogo José Teixeira da Silva, JOTA | LW/St | POR | 65 | 79 | 04/12/96 (27) | 92 | 1.78 | 71 | Sporting Braga | 6.65 | 22600 | | | | 4 | 1 | 5000 | 10 | +1 | |
505,000 < >  Borussia Dortmund |
| NPT | > | Davide BARTESAGHI | LB/CB | ITA | 51 | 74 | 29/12/05 (18) | 87 | | | Borussia Dortmund | | 1300 | | | | 0 | 0 | 945 | 0 | Y | |
 FC Nordsjælland 615,000 < > Borussia Dortmund |
| YLB | > | Conrad HARDER | CS | DEN | 43 | 90 | 07/04/05 (19) | 88 | | | Borussia Dortmund | | 350 | | | | 0 | 0 | 455 | 0 | Y | |
 Zorya 4,170,000 < >  Athletic Bilbao |
| LKL | > | Andriy LUNIN | Gk | UKR | 63 | 96 | 11/02/99 (25) | 87 | 1.91 | 80 | Athletic Bilbao | | 13940 | | | | 0 | 0 | 3285 | 0 | +1 | |
 Union SG 5,265,000 < > Hertha BSC Berlin |
| XIA | > | Deniz UNDAV | St | GER | 63 | 91 | 19/07/96 (28) | 90 | 1.78 | 86 | Hertha BSC Berlin | | 12440 | | | | 0 | 0 | 4085 | 0 | +1 | |
| Loan/transfer listed |
| DNT | - | Javier Guerra Moreno, JAVI GUERRA | CM/DM | ESP | 60/62 | 94 | 13/05/03 (21) | 76 | 1.87 | 77 | Borussia Dortmund | | 14260 | | | T | 0 | 0 | 5325 | 0 | +1 | |
| GAH | - | KAYKY da Silva Chagas | W | BRA | 54 | 94 | 11/06/03 (21) | 90 | 1.75 | 67 | Borussia Dortmund | | 3780 | | | T | 0 | 0 | 1660 | 0 | +1 | |
| UYT | - | Mohammed DARAMY | RW/St | DEN | 63 | 95 | 07/01/02 (22) | 88 | 1.80 | 71 | Borussia Dortmund | | 16340 | | | T | 0 | 0 | 5580 | 0 | +1 | |
| ERX | - | YÉREMY Jesús PINO Santos | W/WS | ESP | 64 | 95 | 20/10/02 (21) | 90 | 1.72 | 65 | Borussia Dortmund | | 18980 | | | T | 3 | 0 | 7090 | 0 | +1 | |
| Released |
| SPA | 16 | Alan VIRGINIUS | RW | FRA | 58 | 12 | 03/01/03 (21) | 88 | 1.75 | 65 | Young Boys | | | | | | | | 2985 | | | |
| VUB | 16 | Luca OYEN | St | BEL | 51 | 0 | 14/03/03 (21) | 91 | 1.72 | 64 | Blackpool | | | | | | | | 1240 | | | |
| Loan callbacks |
| PML | - | LUCAS Lopes BERALDO | CB/LB | BRA | 64 | 99 | 24/11/03 (20) | 90 | 1.82 | 77 | Sporting Braga | 7.18 | 14160 | | | | 1 | 0 | 5230 | 0 | +1 | |
| VFV | - | Alejandro GARNACHO | W | ARG | 64 | 95 | 01/07/04 (20) | 93 | 1.80 | 80 | Sporting Braga | 7.27 | 15740 | | | | 1 | 0 | 7750 | 8 | | |
