Additions
| from | Name | Pos | Team | Team | ||
|---|---|---|---|---|---|---|
| 02/2009 |  | Peter Struhár | DF | |||
| 02/2009 |  | Caihame | MF | |||
| 02/2009 | | Tomáš Kóňa | MF |  | AC Sparta Praha B | Sparta Praha B |
| 02/2009 | | Tomáš Majtán | FW | |||
| 01/2009 | | Erik Čikoš | DF |  | Inter Bratislava | Inter Brat. |
| 01/2009 |  | Lukáš Nachtman | DF |  | Slovan Bratislava | Sl. Bratislava |
| 01/2009 | | Vojtech Horváth | MF | |||
| 01/2009 | | Juraj Kuráň | MF | | Slovan Bratislava | Sl. Bratislava |
| 01/2009 | | Jakub Sylvestr | FW | | Slovan Bratislava | Sl. Bratislava |
| 07/2008 | | Pavol Ďurica | DF |  | Fehérvár FC | Fehérvár FC |
| 07/2008 | | Pavel Hašek | DF |  | Bohemians Praha 1905 | Bohemians |
| 07/2008 | | Kornél Saláta | DF |  | Dukla Banská Bystrica | Bystrica |
| 07/2008 | | Anderson | MF | |||
| 07/2008 | | Ondrej Neoveský | MF | |||
| 07/2008 | | Otto Szabó | MF | | Slovan Bratislava | Sl. Bratislava |
| 07/2008 | | Stanislav Velický | MF | | Dukla Banská Bystrica | Bystrica |
Departures
| from | Name | Pos | Team | Team | ||
|---|---|---|---|---|---|---|
| 02/2009 | | Juraj Piroška | FW |  | Sparta Prague | Sparta Prague |
| 01/2009 | | Radek Dosoudil | DF | | Slovan Bratislava | Sl. Bratislava |
| 01/2009 | | Pavol Farkaš | DF |  | FC Vaslui | FC Vaslui |
| 01/2009 | | Pavel Hašek | DF |  | FK Teplice | FK Teplice |
| 01/2009 | | Ján Kozák | MF | | Slovan Bratislava | Sl. Bratislava |
| 01/2009 | | Tomáš Oravec | FW |  | MŠK Žilina | Žilina |
| 01/2009 | | Zbyněk Pospěch | FW |  | FC Zbrojovka Brno | Zbrojovka Brno |
| 09/2008 | | Marián Čišovský | DF |  | FC Timişoara | Timişoara |
| 09/2008 | | Branislav Obžera | MF | | Slovan Bratislava | Sl. Bratislava |
| 09/2008 | | Juraj Halenár | FW | | Slovan Bratislava | Sl. Bratislava |
| 07/2008 | | Martin Ďurica | MF | | MŠK Žilina | Žilina |
| 07/2008 | | Vratislav Gajdoš | MF | | Dukla Banská Bystrica | Bystrica |