| 1. Round | 16/03/2003 | Shinnik Yaroslavl | - | Chernomorets Novorossisk | 1:1 | ||||
| 2. Round | 23/03/2003 | FK Rostov | - | Shinnik Yaroslavl | 1:1 | ||||
| 12. Round | 12/06/2003 | CSKA Moskva | - | Shinnik Yaroslavl | 2:2 | ||||
| 13. Round | 19/06/2003 | Shinnik Yaroslavl | - | Krylia Sovetov | 2:0 | ||||
| 14. Round | 23/06/2003 | Torpedo Metallurg Moskva | - | Shinnik Yaroslavl | 1:2 | ||||
| 15. Round | 27/06/2003 | Shinnik Yaroslavl | - | Spartak-Alania Vladikavkaz | 2:0 | ||||
| 16. Round | 12/07/2003 | Spartak-Alania Vladikavkaz | - | Shinnik Yaroslavl | 0:1 | ||||
| 17. Round | 19/07/2003 | Shinnik Yaroslavl | - | Torpedo Metallurg Moskva | 3:0 | ||||
| 18. Round | 26/07/2003 | Krylia Sovetov | - | Shinnik Yaroslavl | 1:0 | ||||
| 19. Round | 02/08/2003 | Shinnik Yaroslavl | - | CSKA Moskva | 1:1 | ||||
| 21. Round | 16/08/2003 | Zenit St. Petersburg | - | Shinnik Yaroslavl | 1:2 | ||||
| 22. Round | 24/08/2003 | Torpedo Moskva | - | Shinnik Yaroslavl | 1:1 | ||||
| 23. Round | 31/08/2003 | Shinnik Yaroslavl | - | Spartak Moskva | 1:2 | ||||
| 24. Round | 13/09/2003 | Rubin Kazan | - | Shinnik Yaroslavl | 1:0 |
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