| 1. Jornada | 27.07.2008 | NK Inter Zaprešić | - | HNK Šibenik | 2:3 |  |
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| 2. Jornada | 03.08.2008 | Dinamo Zagreb | - | NK Inter Zaprešić | 3:1 | ||||
| 3. Jornada | 10.08.2008 | NK Inter Zaprešić | - | HNK Rijeka | 2:2 | |
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| 4. Jornada | 17.08.2008 | NK Inter Zaprešić | - | NK Croatia Sesvete | 3:2 | ||||
| 5. Jornada | 24.08.2008 | HNK Cibalia | - | NK Inter Zaprešić | 4:3 | |
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| 8. Jornada | 21.09.2008 | NK Inter Zaprešić | - | NK Zagreb | 1:1 | ||||
| 12. Jornada | 26.10.2008 | HNK Šibenik | - | NK Inter Zaprešić | 1:1 | |
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| 14. Jornada | 09.11.2008 | HNK Rijeka | - | NK Inter Zaprešić | 0:1 | ||||
| 15. Jornada | 16.11.2008 | NK Croatia Sesvete | - | NK Inter Zaprešić | 1:3 | ||||
| 16. Jornada | 23.11.2008 | NK Inter Zaprešić | - | HNK Cibalia | 1:2 | ||||
| 17. Jornada | 30.11.2008 | NK Zadar | - | NK Inter Zaprešić | 1:1 | ||||
| 18. Jornada | 07.12.2008 | NK Inter Zaprešić | - | NK Varteks | 2:3 | |
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| 19. Jornada | 22.02.2009 | NK Zagreb | - | NK Inter Zaprešić | 0:1 | ||||
| 20. Jornada | 01.03.2009 | NK Inter Zaprešić | - | Hajduk Split | 0:4 | |
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| 22. Jornada | 15.03.2009 | NK Inter Zaprešić | - | NK Osijek | 0:1 | ||||
| 23. Jornada | 22.03.2009 | HNK Šibenik | - | NK Inter Zaprešić | 4:0 |
Bosnia y Herzegovina