| Tuesday 16 September 2008 | |||
| Chelsea | 4-0 | Bordeaux | 19:45 |
| Roma | 1-2 | CFR Clug | 19:45 |
| Panathinaikos | 0-2 | Inter | 19:45 |
| Bremen | 0-0 | Anorthosis | 19:45 |
| Basel | 1-2 | Shakhtar | 19:45 |
| Barcelona | 3-1 | Sporting | 19:45 |
| PSV | 0-3 | Atletico Madrid | 19:45 |
| Marseille | 1-2 | Liverpool | 19:45 |
| Wednesday 17 September 2008 | |||
| Manchester United | 0-0 | Villrreal | 19:45 |
| Celtic | 0-0 | AAB | 19:45 |
| Steaua Bucharest | 0-1 | Bayern Munich | 19:45 |
| Lyon | 2-2 | Fiorentina | 19:45 |
| Porto | 3-1 | Fenerbahce | 19:45 |
| Dynamo Kyiv | 1-1 | Arsenal | 19:45 |
| Juventus | 1-1 | Zenit St Petersburg | 19:45 |
| Real Madrid | 2-0 | Bate Borisov | 19:45 |
| Tuesday 30 September 2008 | |||
| Zenit St Petersburg | 1-2 | Real Madrid | 19:45 |
| Aalborg | 0-3 | Manchester United | 19:45 |
| Villarreal | 1-0 | Celtic | 19:45 |
| Fiorentina | 0-0 | Steaua Bucharest | 19:45 |
| Bayern Munich | 1-1 | Lyon | 19:45 |
| Arsenal | 4-0 | Porto | 19:45 |
| Fenerbahce | 0-0 | Dynamo Kyiv | 19:45 |
| Bate Borisov | 2-2 | Juventus | 19:45 |
| Wednesday 1 October 2008 | |||
| CFR Cluj | 0-0 | Chelsea | 19:45 |
| Bordeaux | 1-3 | Roma | 19:45 |
| Famagusta | 3-1 | Panathinaikos | 19:45 |
| Inter | 1-1 | Bremen | 19:45 |
| Sporting | 2-0 | Basel | 19:45 |
| Shakhtar | 1-2 | Barcelona | 19:45 |
| Liverpool | 3-1 | PSV | 19:45 |
| Atletico Madrid | 2-1 | Marseille | 19:45 |
| Tuesday 21 October 2008 | |||
| Zenit St Petersburg | 1-1 | Bate Borisov | 19:45 |
| Juventus | 2-1 | Real Madrid | 19:45 |
| Villarreal | 6-3 | Aalborg | 19:45 |
| Manchester United | 3-0 | Celtic | 19:45 |
| Bayern Munich | 3-0 | Fiorentina | 19:45 |
| Steaua Bucharest | 3-5 | Lyon | 19:45 |
| Fenerbahce | 2-5 | Arsenal | 19:45 |
| Porto | 0-1 | Dynamo Kyiv | 19:45 |
| Wednesday 22 October 2008 | |||
| Bordeaux | 1-0 | CFR Cluj | 19:45 |
| Chelsea | 1-0 | Roma | 19:45 |
| Inter | 1-0 | Famagusta | 19:45 |
| Panathinaikos | 2-2 | Bremen | 19:45 |
| Shakhtar | 0-1 | Sporting | 19:45 |
| Basel | 0-5 | Barcelona | 19:45 |
| Atletico Madrid | 1-1 | Liverpool | 19:45 |
| PSV | 2-0 | Marseille | 19:45 |
| Tuesday 4 November 2008 | |||
| CFR Cluj | 1-2 | Bordeaux | 19:45 |
| Roma | 3-1 | Chelsea | 19:45 |
| Famagusta | 3-3 | Inter | 19:45 |
| Bremen | 0-3 | Panathinaikos | 19:45 |
| Sporting | 1-0 | Shakhtar | 19:45 |
| Barcelona | 1-1 | Basel | 19:45 |
| Liverpool | 1-1 | Atletico Madrid | 19:45 |
| Marseille | 3-0 | PSV | 19:45 |
| Wednesday 5 November 2008 | |||
| AAB Aalborg | 2-2 | Villarreal | 19:45 |
| Celtic | 1-1 | Manchester United | 19:45 |
| Fiorentina | 1-1 | Bayern Munich | 19:45 |
| Lyon | 2-0 | Steaua Bucharest | 19:45 |
| Arsenal | 0-0 | Fenerbahce | 19:45 |
| Dynamo Kyiv | 1-2 | Porto | 19:45 |
| Bate | 0-2 | Zenit St Petersburg | 19:45 |
| Real Madrid | 0-2 | Juventus | 19:45 |
| Tuesday 25 November 2008 | |||
| Villarreal | 0-0 | Manchester United | 19:45 |
| AAB Alborg | 2-1 | Celtic | 19:45 |
| Bayern Munich | 3-0 | Steaua Bucharest | 19:45 |
| Fiorenina | 1-2 | Lyon | 19:45 |
| Fenerbahce | 1-2 | Porto | 19:45 |
| Arsenal | 1-0 | Dynamo Kyiv | 19:45 |
| Zenit St Petersburg | 0-0 | Juventus | 17:30 |
| Bate | 0-1 | Real Madrid | 19:45 |
| Wednesday 26 November 2008 | |||
| Bordeaux | 1-1 | Chelsea | 19:45 |
| CFR Cluj | 1-3 | Roma | 19:45 |
| Inter | 0-1 | Panathinaikos | 19:45 |
| Famagusta | 2-2 | Bremen | 19:45 |
| Shakhtar | 5-0 | Basel | 19:45 |
| Sporting | 2-5 | Barcelona | 19:45 |
| Atletico Madrid | 2-1 | PSV | 19:45 |
| Liverpool | 1-0 | Marseille | 19:45 |
| Tuesday 9 December 2008 | |||
| Chelsea | 2-1 | CFR Cluj | 19:45 |
| Roma | 2-0 | Bordeaux | 19:45 |
| Panathinaikos | 1-0 | Famagusta | 19:45 |
| Bremen | 2-1 | Inter | 19:45 |
| Basel | 0-1 | Sporting | 19:45 |
| Barcelona | 2-3 | Shakhtar | 19:45 |
| PSV | 1-3 | Liverpool | 19:45 |
| Marseille | 0-0 | Atletico Madrid | 19:45 |
| Wednesday 10 December 2008 | |||
| Celtic | 2-0 | Villarreal | 19:45 |
| Steaua Bucharest | 0-1 | Fiorentina | 19:45 |
| Lyon | 2-3 | Bayern Munich | 19:45 |
| Porto | 2-0 | Arsenal | 19:45 |
| Dynamo Kyiv | 1-0 | Fenerbahce | 19:45 |
| Juventus | 0-0 | Bate | 19:45 |
| Manchester United | 2-2 | AAB Alborg | 19:45 |
| Real Madrid | 3-0 | Zenit St Petersburg | 19:45 |
| Tuesday 24 February 2009 | |||
| Atletico Madrid | 2-2 | Porto | 19:45 |
| Lyon | 1-1 | Barcelona | 19:45 |
| Arsenal | 1-0 | Roma | 19:45 |
| Inter | 0-0 | Manchester United | 19:45 |
| Wednesday 25 February 2009 | |||
| Chelsea | 1-0 | Juventus | 19:45 |
| Villarreal | 1-1 | Panathinaikos | 19:45 |
| Sporting | 0-5 | Bayern Munich | 19:45 |
| Real Madrid | 0-1 | Liverpool | 19:45 |
| Tuesday 10 March 2009 | |||
| Bayern Munich | 7-1 | Sporting | 19:45 |
| Juventus | 2-2 | Chelsea | 19:45 |
| Panathinaikos | 1-2 | Villarreal | 19:45 |
| Liverpool | 4-0 | Real Madrid | 19:45 |
| Wednesday 11 March 2009 | |||
| Porto | 0-0 | Atletico Madrid | 19:45 |
| Roma | 1-0 | Arsenal | 19:45 |
| Barcelona | 5-2 | Lyon | 19:45 |
| Manchester United | 2-0 | Inter | 19:45 |
| Tuesday 7 April 2009 | |||
| Villarreal | 1-1 | Arsenal | 19:45 |
| Manchester United | 2-2 | Porto | 19:45 |
| Wednesday 8 April 2009 | |||
| Liverpool | 1-3 | Chelsea | 19:45 |
| Barcelona | 4-0 | Barcelona | 19:45 |
| Tuesday 14 April 2009 | |||
| Chelsea | 4-4 | Liverpool | 19:45 |
| Bayern Munich | 1-1 | Barcelona | 19:45 |
| Wednesday 15 April 2009 | |||
| Arsenal | 3-0 | Villarreal | 19:45 |
| Porto | 0-1 | Manchester United | 19:45 |
| Tuesday 28 April 2009 | |||
| Barcelona | 0-0 | Chelsea | 19:45 |
| Wednesday 28 April 2009 | |||
| Manchester United | 1-0 | Arsenal | 19:45 |
| Tuesday 5 May 2009 | |||
| Arsenal | 1-3 | Manchester United | 19:45 |
| Wednesday 5 May 2009 | |||
| Chelsea | 1-1 * | Barcelona | 19:45 |
| Wednesday 27 May 2009 | |||
| Barcelona | 2-0 | Manchester United | 19:45 |
| * = win on away goals | |||
| ** = win on penalties | |||