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| 25/09/2012 | 09:00 | SKA-Energiya Khabarovsk | - | FK Amkar Perm | 2:1 (1:0, 1:1) aet | |
| 15:00 | Spartak Nalchik | - | Terek Grozny | 1:3 (0:3) | ||
| 17:00 | Baltika Kaliningrad | - | Zenit St. Petersburg | 1:2 (0:1) | ||
| 26/09/2012 | 11:30 | Enisey Krasnoyarsk | - | Rubin Kazan | 2:1 (2:0) | |
| 13:00 | FK Torpedo Armavir | - | Lokomotiv Moskva | 0:3 (0:1) | ||
| 13:00 | FK Astrakhan | - | FK Rostov | 1:3 (1:1) | ||
| 13:00 | Lokomotiv Moskva 2 | - | Mordovia Saransk | 0:1 (0:0) | ||
| 13:30 | FK Tom Tomsk | - | CSKA Moskva | 0:1 (0:1) | ||
| 15:00 | Volga Ulyanovsk | - | Kuban Krasnodar (1928-2018) | 0:1 (0:1) | ||
| 15:00 | Khimik Dzerzhinsk | - | FK Krasnodar | 1:2 (0:0) | ||
| 16:00 | FK Khimki | - | Volga Nizhniy Novgorod | 2:0 (0:0) | ||
| 16:00 | Torpedo Moskva | - | Dinamo Moskva | 0:3 dec. | ||
| 17:00 | FC Salyut Belgorod | - | Spartak Moskva | 1:2 (1:1) | ||
| 27/09/2012 | 13:00 | FK Tyumen | - | Spartak Vladikavkaz | 2:1 (2:0) | |
| 13:00 | Gazovik Orenburg | - | Krylia Sovetov | 2:4 (1:0, 2:2) aet | ||
| 15:00 | FK Ural | - | Anzhi Makhachkala | 2:4 (0:0, 0:0, 0:0) pso |
