| 1. Round | 24/07/2009 | NK Inter Zaprešić | - | NK Varteks | 1:1 | ||||
| 2. Round | 02/08/2009 | NK Varteks | - | HNK Rijeka | 1:1 | ||||
| 3. Round | 08/08/2009 | NK Varteks | - | Lokomotiva Zagreb | 2:1 | ||||
| 4. Round | 15/08/2009 | NK Istra 1961 | - | NK Varteks | 0:1 | ||||
| 5. Round | 22/08/2009 | NK Varteks | - | NK Zagreb | 1:0 | ||||
| 6. Round | 29/08/2009 | HNK Cibalia | - | NK Varteks | 4:0 | ||||
| 7. Round | 13/09/2009 | NK Varteks | - | Hajduk Split | 0:3 |  |
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| 8. Round | 19/09/2009 | HNK Šibenik | - | NK Varteks | 2:1 | ||||
| 9. Round | 26/09/2009 | NK Varteks | - | NK Karlovac | 0:1 | ||||
| 10. Round | 04/10/2009 | Dinamo Zagreb | - | NK Varteks | 2:1 | ||||
| 11. Round | 17/10/2009 | NK Varteks | - | NK Međimurje | 3:0 | ||||
| 12. Round | 24/10/2009 | NK Croatia Sesvete | - | NK Varteks | 2:2 | ||||
| 13. Round | 31/10/2009 | NK Varteks | - | NK Osijek | 1:2 | |
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| 14. Round | 07/11/2009 | NK Zadar | - | NK Varteks | 2:0 | |
Croatia