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| 18.04.2009 | 10:30 | FK Tom Tomsk | - | Spartak Nalchik | 1:0 (0:0) | |
| 13:00 | FK Saturn | - | FK Moskva | 0:1 (0:0) | ||
| 15:30 | Spartak Moskva | - | Terek Grozny | 2:0 (0:0) | ||
| 18:00 | FK Rostov | - | Krylia Sovetov | 0:0 (0:0) | ||
| 19.04.2009 | 10:00 | FK Amkar Perm | - | Kuban Krasnodar (1928-2018) | 1:0 (1:0) | |
| 12:00 | Lokomotiv Moskva | - | Zenit | 1:1 (0:0) | ||
| 14:30 | FK Khimki | - | CSKA Moscú | 0:3 (0:2) | ||
| 17:00 | Rubin Kazan | - | Dinamo Moskva | 3:0 (2:0) |
| » Clasificación | En casa | Fuera de casa | 1.ª vuelta | 2.ª vuelta |
| # | Equipo | P | V | E | D | Goles | DG | Pun. | |
|---|---|---|---|---|---|---|---|---|---|
| 1 |
|
Rubin Kazan | 5 | 3 | 2 | 0 | 8:1 | 7 | 11 |
| 2 |
|
CSKA Moscú | 5 | 3 | 1 | 1 | 10:2 | 8 | 10 |
| 3 |
|
Krylia Sovetov | 5 | 3 | 1 | 1 | 6:2 | 4 | 10 |
| 4 |
|
Zenit | 5 | 2 | 3 | 0 | 7:3 | 4 | 9 |
| 5 |
|
Dinamo Moskva | 5 | 3 | 0 | 2 | 5:6 | -1 | 9 |
| 6 |
|
FK Moskva | 5 | 2 | 2 | 1 | 4:2 | 2 | 8 |
| 7 |
|
Spartak Moskva | 5 | 2 | 1 | 2 | 6:5 | 1 | 7 |
| 8 |
|
FK Tom Tomsk | 5 | 2 | 1 | 2 | 2:4 | -2 | 7 |
| 9 |
|
Terek Grozny | 5 | 2 | 1 | 2 | 3:4 | -1 | 7 |
| 10 |
|
FK Rostov | 5 | 1 | 3 | 1 | 2:2 | 0 | 6 |
| 11 |
|
Lokomotiv Moskva | 5 | 1 | 3 | 1 | 6:8 | -2 | 6 |
| 12 |
|
FK Amkar Perm | 5 | 1 | 3 | 1 | 1:1 | 0 | 6 |
| 13 |
|
FK Saturn | 5 | 1 | 1 | 3 | 4:8 | -4 | 4 |
| 14 |
|
Kuban Krasnodar (1928-2018) | 5 | 1 | 1 | 3 | 2:6 | -4 | 4 |
| 15 |
|
Spartak Nalchik | 5 | 0 | 2 | 3 | 1:5 | -4 | 2 |
| 16 |
|
FK Khimki | 5 | 0 | 1 | 4 | 3:11 | -8 | 1 |
| Champions League | |
| CL Ronda previa | |
| Europa League | |
| Descenso |
