| 5. Round | 20/08/2012 | Krylia Sovetov | - | FK Amkar Perm | 0:2 | ||||
| 6. Round | 26/08/2012 | FK Amkar Perm | - | FK Krasnodar | 2:2 |  |
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| 7. Round | 01/09/2012 | Spartak Vladikavkaz | - | FK Amkar Perm | 1:1 | ||||
| 11. Round | 07/10/2012 | Rubin Kazan | - | FK Amkar Perm | 0:1 | ||||
| 12. Round | 21/10/2012 | FK Amkar Perm | - | Terek Grozny | 0:1 | ||||
| 13. Round | 26/10/2012 | Lokomotiv Moskva | - | FK Amkar Perm | 1:2 | ||||
| 14. Round | 03/11/2012 | FK Amkar Perm | - | Kuban Krasnodar (1928-2018) | 0:3 | ||||
| 15. Round | 09/11/2012 | FK Rostov | - | FK Amkar Perm | 3:0 | ||||
| 16. Round | 18/11/2012 | CSKA Moskva | - | FK Amkar Perm | 3:0 | ||||
| 26. Round | 27/04/2013 | Terek Grozny | - | FK Amkar Perm | 2:1 |
Uzbekistan