Additions
| from | Name | Pos | Team | Team | ||
|---|---|---|---|---|---|---|
| 02/2009 |  | Robert Tomko | FW | |||
| 01/2009 | | Patrik Pavlenda | DF |  | Górnik Zabrze | Górnik Zabrze |
| 01/2009 | | Viliam Macko | MF |  | MFK Ružomberok | MFK Ružomberok |
| 01/2009 | | Pavol Majerník | MF | |||
| 01/2009 | | Karol Pavelka | FW |  | Spartak Vráble | Spartak Vráble |
| 12/2008 | | Štefan Horný | MA | |||
| 08/2008 | | Lubomir Moravčík | MA | |||
| 07/2008 |  | Petr Bolek | GK |  | 1. FC Slovácko | 1. FC Slovácko |
| 07/2008 | | Jozef Novota | GK | |||
| 07/2008 | | Branislav Bajza | DF |  | MFK Dubnica | MFK Dubnica |
| 07/2008 | | Martin Minarčík | DF |  | AS Trenčín | AS Trenčín |
| 07/2008 |  | Aldo Mores | DF |  | Viktoria Žižkov | V. Žižkov |
| 07/2008 | | Ivan Bielik | MF | |||
| 07/2008 | | Matej Náther | MF |  | MŠK Púchov | MŠK Púchov |
| 07/2008 |  | Daniel Bakongolia | FW | |||
| 07/2008 | | Adrián Candrák | FW |  | MFK Topvar Topoľčany | MFK Topoľčany |
| 07/2008 | | Jan Koziak | FW |  | SV Bad Aussee | Bad Aussee |
| 07/2008 |  | Michel Salomon | FW | | MŠK Púchov | MŠK Púchov |
| 07/2008 | | Marian Scepko | FW |
Departures
| from | Name | Pos | Team | Team | ||
|---|---|---|---|---|---|---|
| 01/2009 | | Daniel Bakongolia | FW |  | FK Příbram | FK Příbram |
| 07/2008 | | Jan Juška | MF |  | MFK Karviná | MFK Karviná |
| 07/2008 | | Ivan Bartoš | FW |  | FK Železiarne Podbrezová | FK Železiarne |