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1/32-finals
1/16-finals
1/8-finals
Quarter-finals
Semi-finals
Final
2008/09
1/32-finals
| 1 | VSS Kosice | Bye | |
| 2 | Topolany | Cadca | 0 : 1 |
| 3 | Nitra | Bye | |
| 4 | Raca | MFK Topolcany | 1 : 2 |
| 5 | Puchov | Moravany | 3 : 0 |
| 6 | Vrbove | Banik Prievidza | 0 : 1 |
| 7 | SK Reca | Nemsova | 1 : 0 |
| 8 | Bye | Z. Moravce-Vrable | |
| 9 | Zilina | Bye | |
| 10 | Poprad | Jednota Banova | 0 : 3 |
| 11 | AFC Nove Mesto | Iskra Petrzalka | 2 : 1 |
| 12 | Bye | Trnava | |
| 13 | D. Kubin | Humenne | 1 : 0 |
| 14 | Bye | Banska Bystrica | |
| 15 | Stankovce | SK Senec | 2 : 0 |
| 16 | Bye | Slovan Bratislava | |
| 17 | Ruzomberok | Bye | |
| 18 | Trebisov | L. Mikulas | 0 : 3 |
| 19 | Vrable | Trencin | 3 : 1 |
| 20 | Blava Jaslovske Bohunice | Sala | 2 : 3 |
| 21 | Michalovce | Bye | |
| 22 | Bye | Presov | |
| 23 | Ziar nad Hronom | Lubovna | 1 : 0 |
| 24 | Bye | Dubnica | |
| 25 | Dun. Streda | Bye | |
| 26 | SKP Dubravka | I. Bratislava | 0 : 1 |
| 27 | Vranov | Turcianske Teplice | 7 : 1 |
| 28 | Rimavska Sobota | Lipany | 1 : 3 |
| 29 | Lucenec | Kremnicka | 3 : 2 |
| 30 | Spisska Nova Ves | Podbrezova | 0 : 1 |
| 32 | Bye | Petrzalka |
1/16-finals
| 1 | VSS Kosice | Cadca | 4 : 2 |
| 2 | Nitra | MFK Topolcany | 0 : 2 |
| 3 | Puchov | Banik Prievidza | 2 : 1 |
| 4 | SK Reca | Z. Moravce-Vrable | 0 : 3 |
| 5 | Zilina | Jednota Banova | 2 : 0 |
| 6 | AFC Nove Mesto | Trnava | 0 : 2 |
| 7 | D. Kubin | Banska Bystrica | 1 : 0 |
| 8 | Stankovce | Slovan Bratislava | 0 : 4 |
| 9 | Ruzomberok | L. Mikulas | 1 : 0 |
| 10 | Vrable | Sala | 0 : 1 |
| 11 | Michalovce | Presov | 3 : 1 |
| 12 | Ziar nad Hronom | Dubnica | 0 : 2 |
| 13 | Dun. Streda | I. Bratislava | 4 : 2 |
| 14 | Vranov | Lipany | 1 : 2 |
| 15 | Lucenec | Podbrezova | 2 : 1 |
| 16 | Bye | Petrzalka |
1/8-finals
| 1 | VSS Kosice | MFK Topolcany | 3 : 2 |
| 2 | Puchov | Z. Moravce-Vrable | 0 : 1 |
| 3 | Zilina | Trnava | 1 : 0 |
| 4 | D. Kubin | Slovan Bratislava | 0 : 2 |
| 5 | Ruzomberok | Sala | 4 : 1 |
| 6 | Michalovce | Dubnica | 0 : 2 |
| 7 | Dun. Streda | Lipany | 1 : 0 |
| 8 | Lucenec | Petrzalka | 0 : 2 |
Quarter-finals
| 1 | VSS Kosice | Z. Moravce-Vrable | 2 : 1, 1 : 1 |
| 2 | Zilina | Slovan Bratislava | 0 : 0, 1 : 2 |
| 3 | Ruzomberok | Dubnica | 2 : 0, 1 : 0 |
| 4 | Dun. Streda | Petrzalka | 1 : 1, 0 : 0 |
Semi-finals
| 1 | VSS Kosice | Slovan Bratislava | 1 : 1, 1 : 0 |
| 2 | Ruzomberok | Petrzalka | 1 : 1, 1 : 3 |
Final
| 1 | VSS Kosice | Petrzalka | 3 : 1 |
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