| 3. Round | 26/07/2009 | MŠK Žilina | - | FK Senica | 3:0 |  |
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| 4. Round | 02/08/2009 | MŠK Žilina | - | Spartak Trnava | 2:1 | |
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| 16. Round | 08/11/2009 | MŠK Žilina | - | MFK Košice | 4:1 | |
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| 17. Round | 21/11/2009 | MFK Ružomberok | - | MŠK Žilina | 0:3 | |
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| 20. Round | 27/02/2010 | MŠK Žilina | - | MFK Dubnica | 4:0 | |
Czech Republic