| 1. Round | 22/08/2009 | Ergotelis | - | Panathinaikos | 0:3 | ||||
| 2. Round | 30/08/2009 | Panathinaikos | - | Skoda Xanthi | 1:0 | ||||
| 3. Round | 13/09/2009 | Panthrakikos | - | Panathinaikos | 0:1 | ||||
| 11. Round | 22/11/2009 | Panathinaikos | - | Asteras Tripolis | 1:1 | ||||
| 12. Round | 29/11/2009 | Olympiakos Piraeus | - | Panathinaikos | 2:0 | ||||
| 13. Round | 06/12/2009 | Panathinaikos | - | Atromitos | 3:1 | ||||
| 14. Round | 12/12/2009 | Iraklis Saloniki | - | Panathinaikos | 0:1 | ||||
| 15. Round | 19/12/2009 | Panathinaikos | - | PAS Giannina | 4:0 |  |
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| 16. Round | 06/01/2010 | Panathinaikos | - | Ergotelis | 4:1 | ||||
| 17. Round | 09/01/2010 | Skoda Xanthi | - | Panathinaikos | 1:2 |  |
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| 18. Round | 17/01/2010 | Panathinaikos | - | Panthrakikos | 2:0 | |
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| 19. Round | 24/01/2010 | Aris Saloniki | - | Panathinaikos | 0:0 | |
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| 20. Round | 31/01/2010 | Panathinaikos | - | AEK Athen | 1:1 | ||||
| 21. Round | 07/02/2010 | AE Lárissa | - | Panathinaikos | 0:3 | ||||
| 23. Round | 21/02/2010 | PAOK Saloniki | - | Panathinaikos | 2:1 | ||||
| 24. Round | 28/02/2010 | Panionios GSS | - | Panathinaikos | 0:2 | ||||
| 30. Round | 18/04/2010 | PAS Giannina | - | Panathinaikos | 0:1 |
Greece