Additions
| from | Name | Pos | Team | Team | ||
|---|---|---|---|---|---|---|
| 01/2009 |  | Karel Kratochvíl | DF |  | FC Hradec Králové | Hradec Králové |
| 01/2009 |  | Roman Mihalik | DF |  | FC Baník Prievidza | FC Baník Prievidza |
| 07/2008 | | Ján Čirik | DF |  | Slovan Duslo Šaľa | Duslo Šaľa |
| 07/2008 | | Péter Polgár | DF |  | Zalaegerszegi TE | ZTE |
| 07/2008 | | Peter Šedivý | DF |  | Sigma Olomouc | Olomouc |
| 07/2008 | | Ladislav Szöcs | DF | |||
| 07/2008 | | Rastislav Bakala | MF | |||
| 07/2008 | | Filip Kiss | MF | |||
| 07/2008 | | Daniel Kosmel | MF |  | Slovan Bratislava | Sl. Bratislava |
| 07/2008 | | Pavol Sedlák | MF | | Slovan Bratislava | Sl. Bratislava |
| 07/2008 | | Róbert Szegedi | MF | |||
| 07/2008 | | Marián Tomčak | FW |  | Spartak Trnava | Spartak Trnava |
Departures
| from | Name | Pos | Team | Team | ||
|---|---|---|---|---|---|---|
| 02/2009 | | Róbert Szegedi | MF |  | FC Zbrojovka Brno | Zbrojovka Brno |
| 01/2009 | | Erik Čikoš | DF |  | FC Petržalka | FC Petržalka |
| 01/2009 | | Martin Ševela | DF |  | AS Trenčín | AS Trenčín |
| 01/2009 | | Rastislav Bakala | MF |  | Dynamo České Budějovice | Č. Budějovice |
| 09/2008 | | Ladislav Szöcs | DF |  | ŠTK 1914 Šamorín | ŠTK Šamorín |
| 09/2008 | | Jozef Friga | DF |  | ŠKP Inter Dúbravka Bratislava | ŠKPIDBratislava |
| 07/2008 | | Tomáš Košický | GK |  | Catania FC | Catania FC |
| 07/2008 | | Peter Majerník | DF |  | MFK Ružomberok | MFK Ružomberok |
| 07/2008 | | Roman Mihalik | DF | | FC Baník Prievidza | FC Baník Prievidza |
| 07/2008 | | Richard Hejcik | MF |  | FK Senica | FK Senica |
| 07/2008 | | Ladislav Jurkemik | MA |  | 1. FC Slovácko | 1. FC Slovácko |