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| 22.09.2009 | 15:30 | FK Spišská Nová Ves | - | MFK Dubnica | 1:0 | |
| 15:30 | 1. HFC Humenné | - | FK Bodva Moldava | 1:2 | ||
| 15:30 | MŠK Rimavská Sobota | - | Tatran Liptovský Mikuláš | 3:1 | ||
| 15:30 | MFK Vrbové | - | Slovan Bratislava | 0:7 | ||
| 15:30 | FC Nitra | - | FK Mesto Prievidza | 5:0 | ||
| 15:30 | AFC Nové Mesto | - | MFK Petržalka | 1:6 | ||
| 15:30 | Spartak Myjava | - | FK Senica | 7:6 i.E. | ||
| 17:30 | Spartak Trnava | - | FK Rača | 5:0 | ||
| 18:00 | ŠK SFM Senec | - | FC DAC 1904 | 2:4 i.E. | ||
| 23.09.2009 | 15:30 | MFK Snina | - | MFK Košice | 0:3 | |
| 15:30 | MFK Banská Bystrica | - | MFK Ružomberok | 1:3 | ||
| 15:30 | 1. FC Tatran Prešov | - | LAFC Lučenec | 5:0 | ||
| 15:30 | FK Čadca | - | FK Dukla Banská Bystrica | 0:1 | ||
| 15:30 | ŠKF Sereď | - | Zlaté Moravce | 1:4 | ||
| 15:30 | OTJ Moravany | - | AS Trenčín | 0:3 |
