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| Transfers |
 SC Freiburg 2,000,000 < > Kaiserslautern |
| XGF | > | Christian GÜNTER | LB | GER | 64 | 89 | 28/02/93 (31) | 89 | 1.84 | 81 | Kaiserslautern | | 18780 | | | | 0 | 0 | 2215 | 0 | +3 | |
| GHP | < | Domagoj BRADARIC | LB | CRO | 60 | 13 | 10/12/99 (24) | 91 | 1.78 | 69 | SC Freiburg | | | 4 | | | | | 1955 | | | |
| SC Freiburg 10,000,000 < > Kaiserslautern |
| GSU | > | Kevin SCHADE | St | GER | 61 | 96 | 27/11/01 (22) | 96 | 1.83 | 74 | Kaiserslautern | | 10820 | | | | 0 | 0 | 4875 | 0 | +3 | |
| MDC | < | Marvin FRIEDRICH | CB | GER | 62 | 0 | 13/12/95 (28) | 94 | 1.93 | 78 | SC Freiburg | | | | | | | | 2060 | | | |
 Paris SG < >  Anderlecht |
| QKK | < | Bradley BARCOLA | LW | FRA | 64 | 92 | 02/09/02 (22) | 89 | 1.82 | 66 | Paris SG | | 17680 | | | | 0 | 0 | 6440 | 0 | +4 | |
| SMQ | > | Pape Matar SARR | CM | SEN | 64 | 48 | 14/09/02 (21) | 86 | 1.85 | 70 | Anderlecht | | 18080 | 14 | | | 0 | 0 | 7090 | 0 | +4 | |
| Dinamo Zagreb 4,000,000 < > Lille |
| JHH | > | Martin BATURINA | CM | CRO | 61 | 95 | 16/02/03 (21) | 89 | 1.72 | 68 | Lille | | 10920 | | | | 1 | 0 | 4615 | 0 | +4 | |
| PVJ | < | Curtis JONES | CM/AM | ENG | 64 | 42 | 30/01/01 (23) | 87 | 1.85 | 78 | Dinamo Zagreb | | 15780 | | | | 0 | 0 | 5790 | 0 | | |
 AEK 6,900,000 < > Lille |
| MMI | > | Luka SUCIC | AM | CRO | 61 | 94 | 08/09/02 (21) | 80 | 1.85 | 69 | Lille | | 9600 | | | | 0 | 0 | 4615 | 0 | +4 | |
 Osasuna < > 1,580,000 Newcastle United |
| DRU | < | Javier Manquillo Gaitán, JAVI MANQUILLO | RWB | ESP | 61 | 55 | 05/05/94 (30) | 89 | 1.72 | 62 | Osasuna | | 9520 | 1 | | | 1 | 0 | 1535 | 0 | +3 | |
 FC Porto 12,500,000 < > Newcastle United |
| VMN | > | JOĂO MÁRIO Neto Lopes | RWB/RW | POR | 64 | 94 | 03/01/00 (24) | 91 | 1.78 | 62 | Newcastle United | | 17980 | | | | 1 | 0 | 3490 | 0 | +2 | |
| CPZ | < | Robert KENEDY Nunes do Nascimento | LW | BRA | 57 | 98 | 08/02/96 (28) | 95 | 1.81 | 77 | FC Porto | | 5340 | | | | 0 | 0 | 1435 | 0 | | |
| JZR | > | Wenderson GALENO | LW/St | BRA | 65 | 91 | 22/10/97 (26) | 90 | 1.86 | 78 | Newcastle United | | 21200 | | | | 2 | 0 | 5315 | 2 | +2 | |
Dumiense/CJP II < >  SC Heerenveen |
| AAQ | < | ROGER Fernandes | W | POR | 53/55 | 94 | 21/11/05 (18) | 76 | 1.70 | 63 | SC Heerenveen | | 1990 | | | | 0 | 0 | 2500 | 0 | Y | (t.21, Dumiense/CJP II) |
| Sporting Braga < > 3,630,000 Benfica |
| FRY | < | Alejandro REMIRO Gargallo | Gk | ESP | 66 | 1 | 24/03/95 (29) | 91 | 1.91 | 82 | Sporting Braga | | | | | | | | 3465 | | | |
| Sevilla 40,000,000 < > Benfica |
| ACO | > | Giorgi MAMARDASHVILI | Gk | GEO | 65 | 94 | 29/09/00 (23) | 90 | 1.99 | 86 | Benfica | | 21900 | | | | 1 | 0 | 5130 | 0 | +4 | |
| Lorient B 7,000,000 < > Arsenal |
| RUV | > | Eli Junior KROUPI | CS | FRA | 55 | 68 | 23/06/06 (18) | 87 | | | Arsenal | | 2190 | | | | 0 | 0 | 2910 | 0 | Y | |
2,880,000 < >  Napoli |
| TYD | > | RAÚL García de Haro | CS | ESP | 61 | 81 | 03/11/00 (23) | 93 | 1.92 | 72 | Napoli | | 9740 | | | | 0 | 0 | 4375 | 0 | | |
| Released |
| RTH | 16 | Ciaran CLARK | CB/LB | IRL | 54 | 6 | 26/09/89 (34) | 93 | 1.87 | 76 | Shamrock Rovers | | | | | | | | 75 | | | |
| MNG | 16 | Lequincio ZEEFUIK | CS/AM | NED | 48 | 0 | 26/11/04 (19) | 88 | | | AZ | | | | | | | | 965 | | | |
| HCG | 16 | Gervais Yao Kouassi, GERVINHO | WS/W | CIV | 54 | 14 | 27/05/87 (37) | 89 | 1.79 | 63 | (retired) | | | | | | | | F/t | | | |
| Loan callbacks |
| MZY | - | Destiny UDOGIE | LWB | ITA | 63/64 | 94 | 28/11/02 (21) | 79 | | | IFK Göteborg | | 17680 | | | | 0 | 0 | 4795 | 0 | +4 | |
| MPP | - | YASIN Özcan | CB | TUR | 59 | 95 | 20/04/06 (18) | 86 | | | SC Heerenveen | | 3760 | | | | 0 | 0 | 3020 | 0 | Y | |
| YJI | - | Tobias SLOTSAGER | CB | DEN | 50 | 46 | 01/01/06 (18) | 86 | | | Rangers | | 1020 | | | | 0 | 0 | 815 | 0 | Y | |
| XDR | - | Dean HUIJSEN | CB | ESP | 55 | 88 | 14/04/05 (19) | 93 | | | Rangers | | 2220 | | | | 0 | 0 | 1570 | 0 | Y | |
| EZM | - | Claudio Jeremias ECHEVERRI | AM | ARG | 52 | 97 | 02/01/06 (18) | 82 | 1.71 | 62 | SC Heerenveen | | 1320 | | | | 0 | 0 | 1620 | 0 | Y | |
| HVB | - | Soungoutou MAGASSA | CB/DM | FRA | 61 | 48 | 08/10/03 (20) | 82 | | | IFK Göteborg | | 5640 | | | | 0 | 0 | 3425 | 0 | Y | |
