| Nick | Name | Age | Initial Round | Final Round | Matches | ||
|---|---|---|---|---|---|---|---|
 | Pellegrini | Manuel Luis Pellegrini Ripamonti | 55 | 1 | 38 | 38 |
| Nick | Name | Age | Pos | PM | SM | CM | Min | ||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 13 |  | Diego López | Diego López Rodríguez | 27 | 38 | 38 | 38 | 3420 | 3 | 0 | 0 | ||
| 17 |  | Javi Venta | Javier Rodríguez Venta | 33 | 22 | 21 | 18 | 1828 | 6 | 1 | 0 | ||
| 5 |  | Capdevila | Joan Capdevila Méndez | 30 | 36 | 36 | 35 | 3204 | 4 | 0 | 5 | ||
| 4 |  | Godín | Diego Roberto Godín Leal | 22 | 31 | 31 | 30 | 2767 | 14 | 1 | 0 | ||
| 2 |  | Gonzalo | Gonzalo Javier Rodríguez Prado | 24 | 27 | 27 | 26 | 2362 | 9 | 0 | 2 | ||
| 6 |  | Eguren | Sebastián Eguren Ledesma | 27 | 32 | 28 | 20 | 2345 | 9 | 0 | 1 | ||
| 8 |  | Cazorla | Santiago Cazorla González | 24 | 30 | 26 | 20 | 2323 | 3 | 0 | 8 | ||
| 19 |  | Senna | Marcos Antonio Senna Da Silva | 32 | 27 | 25 | 16 | 2103 | 8 | 0 | 2 | ||
| 7 |  | Pirès | Robert Pirès | 35 | 32 | 24 | 7 | 2038 | 5 | 1 | 3 | ||
| 16 |  | Llorente | Joseba Llorente Etxarri | 29 | 32 | 28 | 13 | 2311 | 5 | 1 | 15 | ||
| 22 |  | Rossi | Giuseppe Rossi | 21 | 30 | 28 | 10 | 2202 | 4 | 0 | 12 | ||
| Substitutes | |||||||||||||
| Nick | Name | Age | Pos | PM | SM | CM | Min | ||||||
| 1 |  | Viera | Mario Sebastián Viera Galaín | 25 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | ||
| 11 |  | Ibagaza | Ariel Miguel Santiago Ibagaza | 32 | 30 | 19 | 5 | 1646 | 5 | 0 | 1 | ||
| 21 |  | Bruno Soriano | Bruno Soriano Llido | 24 | 25 | 12 | 7 | 1380 | 6 | 0 | 0 | ||
| 10 |  | Cani | Rubén Gracia Calmache | 27 | 22 | 16 | 14 | 1479 | 2 | 0 | 6 | ||
| 18 |  | Ángel | Ángel Domingo López Ruano | 27 | 21 | 19 | 17 | 1675 | 4 | 1 | 0 | ||
| 14 |  | Matías Fernández | Matías Ariel Fernández Fernández | 22 | 21 | 5 | 1 | 630 | 1 | 0 | 3 | ||
| 15 |  | Nihat | Nihat Kahveci | 29 | 19 | 8 | 2 | 755 | 1 | 0 | 0 | ||
| 9 |  | Franco | Guillermo Luis Franco Farcuasón | 32 | 18 | 5 | 1 | 639 | 5 | 0 | 0 | ||
| 20 |  | Fabricio Fuentes | Fabricio Fabio Fuentes | 32 | 16 | 14 | 14 | 1348 | 4 | 0 | 2 | ||
| 3 |  | Edmilson | José Edmilson Gomes Moraes | 32 | 6 | 2 | 1 | 242 | 0 | 0 | 0 | ||
| 24 |  | Altidore | Josmer Volmy Altidore | 19 | 6 | 2 | 1 | 258 | 0 | 0 | 1 | ||
| 12 |  | Cygan | Pascal Cygan | 34 | 4 | 3 | 3 | 299 | 1 | 0 | 0 | ||
| 27 |  | Jordi Pablo | Jordi Pablo Ripollès | 18 | 2 | 0 | 0 | 46 | 0 | 0 | 0 | ||
| 31 |  | Joan Tomàs | Joan Tomàs Campasol | 23 | 1 | 0 | 0 | 25 | 0 | 0 | 0 | ||
| 32 |  | Matilla | Javier Magro Matilla | 20 | 1 | 1 | 1 | 90 | 0 | 0 | 0 | ||
| 37 |  | Mario | Mario Gaspar Pérez Martínez | 18 | 1 | 0 | 0 | 23 | 0 | 0 | 0 | ||
Maximum scorer:
Llorente, 15
Most booked player:
Godín, 14
Most sent off player:
Javi Venta, 1
Most used player:
Diego López, 3420 minutes
Wider victory at home:
2 - 0 against Racing de Santander
Wider defeat at home:
0 - 3 against Valladolid
Wider victory away:
1 - 4 against Athletic Club
Wider defeat away:
3 - 0 against Deportivo de La Coruña
Longest winning run:
5 consecutive victories
Longest losing run:
3 consecutive defeats
| Nick | Name | Age | Pos | Club from | ||
|---|---|---|---|---|---|---|
| Llorente | Joseba Llorente Etxarri | 29 |  Valladolid | ||
| Ibagaza | Ariel Miguel Santiago Ibagaza | 32 |  Mallorca | ||
| Edmilson | José Edmilson Gomes Moraes | 32 |  Barcelona | ||
| Altidore | Josmer Volmy Altidore | 19 | |||
| Jordi Pablo | Jordi Pablo Ripollès | 18 |  Villarreal B | ||
| Joan Tomàs | Joan Tomàs Campasol | 23 |  Alicante | ||
| Matilla | Javier Magro Matilla | 20 | Villarreal B | ||
| Mario | Mario Gaspar Pérez Martínez | 18 | Villarreal B | ||
| Leaving | ||||||
| Nick | Name | Age | Pos | Club to | ||
 | Tomasson | Jon Dahl Tomasson | 31 | |||
 | Juan Carlos | Juan Carlos Sánchez Martínez | 20 | Villarreal B | ||
 | Josico | José Joaquín Moreno Verdú | 32 | |||
 | Mavuba | Rio Antonio Zoba Mavuba | 23 | |||
 | Josemi | José Miguel González Rey | 28 | Mallorca | ||
 | Riquelme | Juan Román Riquelme | 29 | |||
 | Xisco Nadal | Fernando Sebastián Nadal Martorell | 21 |  Levante | ||
| Competition | Type | Date | Home | Visitor | ||||
|---|---|---|---|---|---|---|---|---|
| Liga | 1 | 31/08/2008 | Osasuna | 1 | 1 | Villarreal |  |  |
| Liga | 2 | 14/09/2008 | Villarreal | 1 | 0 | Deportivo de la Coruña |  | |
| Champions League | G1 | 17/09/2008 | Manchester United | 0 | 0 | Villarreal | | |
| Liga | 3 | 21/09/2008 | Numancia | 1 | 2 | Villarreal | | |
| Liga | 4 | 24/09/2008 | Villarreal | 2 | 0 | Racing de Santander | | |
| Liga | 5 | 27/09/2008 | Sporting de Gijón | 0 | 1 | Villarreal | | |
| Champions League | G2 | 30/09/2008 | Villarreal | 1 | 0 | Celtic Glasgow | | |
| Liga | 6 | 04/10/2008 | Villarreal | 2 | 1 | Betis | | |
| Liga | 7 | 18/10/2008 | Espanyol | 0 | 0 | Villarreal | | |
| Champions League | G3 | 21/10/2008 | Villarreal | 6 | 3 | Aalborg | | |
| Liga | 8 | 26/10/2008 | Villarreal | 4 | 4 | Atlético de Madrid | | |
| King's Cup | 4 | 29/10/2008 | Ejido | 5 | 0 | Villarreal |  | |
| Liga | 9 | 01/11/2008 | Athletic de Bilbao | 1 | 4 | Villarreal | | |
| Champions League | G4 | 05/11/2008 | Aalborg | 2 | 2 | Villarreal | | |
| Liga | 10 | 09/11/2008 | Villarreal | 2 | 1 | Almería | | |
| King's Cup | 5 | 12/11/2008 | Villarreal | 1 | 1 | Ejido | | |
| Liga | 11 | 16/11/2008 | Málaga | 2 | 2 | Villarreal | | |
| Liga | 12 | 22/11/2008 | Villarreal | 0 | 3 | Valladolid | | |
| Champions League | G5 | 25/11/2008 | Villarreal | 0 | 0 | Manchester United | | |
| Liga | 13 | 30/11/2008 | Recreativo de Huelva | 1 | 2 | Villarreal | | |
| Liga | 14 | 06/12/2008 | Villarreal | 3 | 3 | Getafe | | |
| Champions League | G6 | 10/12/2008 | Celtic Glasgow | 2 | 0 | Villarreal | | |
| Liga | 15 | 14/12/2008 | Sevilla | 1 | 0 | Villarreal | | |
| Liga | 16 | 21/12/2008 | Villarreal | 1 | 2 | Barcelona | | |
| Liga | 17 | 04/01/2009 | Real Madrid | 1 | 0 | Villarreal | | |
| Liga | 18 | 10/01/2009 | Valencia | 3 | 3 | Villarreal | | |
| Liga | 19 | 18/01/2009 | Villarreal | 2 | 0 | Mallorca | | |
| Liga | 20 | 24/01/2009 | Villarreal | 1 | 1 | Osasuna | | |
| Liga | 21 | 01/02/2009 | Deportivo de la Coruña | 3 | 0 | Villarreal | | |
| Liga | 22 | 08/02/2009 | Villarreal | 2 | 1 | Numancia | | |
| Liga | 23 | 15/02/2009 | Racing de Santander | 1 | 1 | Villarreal | | |
| Liga | 24 | 21/02/2009 | Villarreal | 2 | 1 | Sporting de Gijón | | |
| Champions League | VF1 | 25/02/2009 | Villarreal | 1 | 1 | Panathinaikos | | |
| Liga | 25 | 01/03/2009 | Betis | 2 | 2 | Villarreal | | |
| Liga | 26 | 07/03/2009 | Villarreal | 1 | 0 | Espanyol | | |
| Champions League | VF2 | 10/03/2009 | Panathinaikos | 1 | 2 | Villarreal | | |
| Liga | 27 | 15/03/2009 | Atlético de Madrid | 3 | 2 | Villarreal | | |
| Liga | 28 | 21/03/2009 | Villarreal | 2 | 0 | Athletic de Bilbao | | |
| Liga | 29 | 04/04/2009 | Almería | 3 | 0 | Villarreal | | |
| Champions League | QF1 | 07/04/2009 | Villarreal | 1 | 1 | Arsenal | | |
| Liga | 30 | 11/04/2009 | Villarreal | 0 | 2 | Málaga | | |
| Champions League | QF2 | 15/04/2009 | Arsenal | 3 | 0 | Villarreal | | |
| Liga | 31 | 19/04/2009 | Valladolid | 0 | 0 | Villarreal | | |
| Liga | 32 | 23/04/2009 | Villarreal | 2 | 1 | Recreativo de Huelva | | |
| Liga | 33 | 26/04/2009 | Getafe | 1 | 2 | Villarreal | | |
| Liga | 34 | 02/05/2009 | Villarreal | 0 | 2 | Sevilla | | |
| Liga | 35 | 10/05/2009 | Barcelona | 3 | 3 | Villarreal | | |
| Liga | 36 | 16/05/2009 | Villarreal | 3 | 2 | Real Madrid | | |
| Liga | 37 | 23/05/2009 | Villarreal | 3 | 1 | Valencia | | |
| Liga | 38 | 30/05/2009 | Mallorca | 2 | 3 | Villarreal | | |
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