| 1. Round | 19/09/2002 | PFC Litex Lovech | - | Panathinaikos | 0:1 | ||||
| 2. Round | 31/10/2002 | Fenerbahçe | - | Panathinaikos | 1:1 | ||||
| 2. Round | 14/11/2002 | Panathinaikos | - | Fenerbahçe | 4:1 |  |
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| 3. Round | 28/11/2002 | Slovan Liberec | - | Panathinaikos | 2:2 | ||||
| 3. Round | 12/12/2002 | Panathinaikos | - | Slovan Liberec | 1:0 | ||||
| Round of 16 | 20/02/2003 | Panathinaikos | - | RSC Anderlecht | 3:0 | ||||
| Round of 16 | 27/02/2003 | RSC Anderlecht | - | Panathinaikos | 2:0 | ||||
| Quarter-finals | 13/03/2003 | FC Porto | - | Panathinaikos | 0:1 | ||||
| Quarter-finals | 20/03/2003 | Panathinaikos | - | FC Porto | 0:2 aet |
Greece