Lokomotiv Moscow 5-3 Anzhi Makhachkala
| 20.09.2006 | Anzhi Makhachkala | 1-1 | Lokomotiv Moscow | |
| 02.07.2006 | Lokomotiv Moscow | 4-2 | Anzhi Makhachkala | |
CSKA Moscow 4-1 Mordovia Saransk
| 20.09.2006 | Mordovia Saransk | 1-0 | CSKA Moscow | |
| 02.07.2006 | CSKA Moscow | 4-0 | Mordovia Saransk | |
Dynamo Kirov 1-6 Tom Tomsk
| 20.09.2006 | Tom Tomsk | 2-1 | Dynamo Kirov | |
| 02.07.2006 | Dynamo Kirov | 0-4 | Tom Tomsk | |
Dynamo Makhachkala* 4-3 Luch-Energiya
| 20.09.2006 | Luch-Energiya | 3-0 | Dynamo Makhachkala* | |
| 02.07.2006 | Dynamo Makhachkala* | 4-0 | Luch-Energiya | |
Spartak N.Novgorod 1-5 Dynamo Moscow
| 20.09.2006 | Dynamo Moscow | 2-0 | Spartak N.Novgorod | |
| 02.07.2006 | Spartak N.Novgorod | 1-3 | Dynamo Moscow | |
Terek Groznyi 4-5 FK Moscow
| 20.09.2006 | FK Moscow | 4-0 | Terek Groznyi | |
| 02.07.2006 | Terek Groznyi | 4-1 | FK Moscow | |
Amkar Perm 5-1 FK Nazran
| 20.09.2006 | FK Nazran | 1-2 | Amkar Perm | |
| 02.07.2006 | Amkar Perm | 3-0 | FK Nazran | |
FK Ural 2-3 Spartak Moscow
| 20.09.2006 | Spartak Moscow | 2-2 | FK Ural | |
| 02.07.2006 | FK Ural | 0-1 | Spartak Moscow | |
Krylia Sovetov Samara 5-2 Kuban Krasnodar*
| 20.09.2006 | Kuban Krasnodar* | 1-4 | Krylia Sovetov Samara | |
| 02.07.2006 | Krylia Sovetov Samara | 1-1 | Kuban Krasnodar* | |
Saturn 6-2 Metallurg Krasn.
| 20.09.2006 | Metallurg Krasn. | 1-2 | Saturn | |
| 02.07.2006 | Saturn | 4-1 | Metallurg Krasn. | |
Dynamo Bryansk 3-3 Shinnik Yaroslavl
| 20.09.2006 | Shinnik Yaroslavl | 3-1 | Dynamo Bryansk | |
| 02.07.2006 | Dynamo Bryansk | 2-0 | Shinnik Yaroslavl | |
Spartak Nalchik 1-3 Sibir Novosibirsk*
| 20.09.2006 | Sibir Novosibirsk* | 2-0 | Spartak Nalchik | |
| 02.07.2006 | Spartak Nalchik | 1-1 | Sibir Novosibirsk* | |
Fakel Voronezh 1-3 Torpedo Moscow
| 19.09.2006 | Torpedo Moscow | 3-1 | Fakel Voronezh | |
| 02.07.2006 | Fakel Voronezh | 0-0 | Torpedo Moscow | |
Zenit-2 0-5 Rubin Kazan
| 09.09.2006 | Rubin Kazan | 2-0 | Zenit-2 | |
| 02.07.2006 | Zenit-2 | 0-3 | Rubin Kazan | |