| Group C | 04/10/2012 | Bor. Mönchengladbach | - | Fenerbahçe | 2:4 | ||||
| Group C | 25/10/2012 | AEL Limassol | - | Fenerbahçe | 0:1 | ||||
| Group C | 08/11/2012 | Fenerbahçe | - | AEL Limassol | 2:0 | ||||
| Group C | 22/11/2012 | Olympique Marseille | - | Fenerbahçe | 0:1 | ||||
| Group C | 06/12/2012 | Fenerbahçe | - | Bor. Mönchengladbach | 0:3 | ||||
| 2. Round | 14/02/2013 | BATE Borisov | - | Fenerbahçe | 0:0 | ||||
| 2. Round | 21/02/2013 | Fenerbahçe | - | BATE Borisov | 1:0 |  |
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| Round of 16 | 07/03/2013 | Viktoria Plzeň | - | Fenerbahçe | 0:1 | ||||
| Round of 16 | 14/03/2013 | Fenerbahçe | - | Viktoria Plzeň | 1:1 | ||||
| Quarter-finals | 11/04/2013 | Lazio Roma | - | Fenerbahçe | 1:1 | ||||
| Semi-finals | 25/04/2013 | Fenerbahçe | - | SL Benfica | 1:0 | ||||
| Semi-finals | 02/05/2013 | SL Benfica | - | Fenerbahçe | 3:1 |
Turkey