| 3. Round | 10/08/2012 | AS Monaco | - | FC Istres | 3:2 | ||||
| 4. Round | 17/08/2012 | FC Istres | - | LB Châteauroux | 0:0 | ||||
| 5. Round | 24/08/2012 | Angers SCO | - | FC Istres | 0:1 | ||||
| 6. Round | 31/08/2012 | FC Istres | - | Chamois Niortais | 1:0 | ||||
| 7. Round | 14/09/2012 | AJ Auxerre | - | FC Istres | 0:0 | ||||
| 8. Round | 21/09/2012 | FC Istres | - | Nîmes Olympique | 2:0 |  |
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| 9. Round | 28/09/2012 | CS Sedan | - | FC Istres | 0:2 |  |
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| 10. Round | 05/10/2012 | FC Istres | - | SM Caen | 0:4 | |
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| 11. Round | 19/10/2012 | Clermont Foot Auvergne 63 | - | FC Istres | 2:1 | |
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| 14. Round | 09/11/2012 | FC Istres | - | Le Mans FC | 1:0 | ||||
| 15. Round | 23/11/2012 | FC Istres | - | AC Arles-Avignon | 0:1 |  |
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| 18. Round | 15/12/2012 | Dijon FCO | - | FC Istres | 3:1 | |
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| 19. Round | 21/12/2012 | FC Istres | - | RC Lens | 2:2 |
Morocco