Additions
| from | Name | Pos | Team | Team | ||
|---|---|---|---|---|---|---|
| 01/2009 |  | Franck Grasseler | GK |  | FC Basel 1893 II | FC Basel II |
| 01/2009 | | Loan Boumelaha | DF | | FC Basel 1893 II | FC Basel II |
| 01/2009 |  | David Low | DF |  | Offenburger FV | Offenburger FV |
| 01/2009 |  | Samet Gündüz | MF |  | FC Wil 1900 | FC Wil |
| 01/2009 | | Pascal Schürpf | MF |  | FC Basel 1893 | FC Basel |
| 12/2008 | | Sascha Studer | GK |  | FC Aarau | FC Aarau |
| 12/2008 | | Steven Oberle | GK |  | FC Basel 1893 U16 | U16 |
| 08/2008 |  | Chol-Ryong Pak | DF | |||
| 08/2008 | | Alain Portmann | GK |  | FC Thun Berner Oberland | FC Thun |
| 07/2008 | | David Da Costa | GK |  | FC Chiasso | FC Chiasso |
| 07/2008 | | Daniel Hofer | GK |  | FC Laufen | FC Laufen |
| 07/2008 | | Rafael Szucs | GK | |||
| 07/2008 | | Luca Guarda | DF | |||
| 07/2008 | | Dominik Ritter | DF | | FC Basel 1893 | FC Basel |
| 07/2008 |  | Jean-Pierre Tcheutchoua | DF |  | FC Gossau | FC Gossau |
| 07/2008 | | Peter Wiki | DF |  | FC Zürich II | FC Zürich II |
| 07/2008 | | Kuk-jin Kim | MF |  | Pyongyang City Club | Pyongyang |
| 07/2008 | | Manuel Lack | MF | |||
| 07/2008 |  | Vladimir Peralta | MF |  | Grasshopper Club Zürich II | GC Zürich II |
Departures
| from | Name | Pos | Team | Team | ||
|---|---|---|---|---|---|---|
| 01/2009 | | Marco Walker | AS-CO | | FC Basel 1893 | FC Basel |
| 01/2009 | | Alain Portmann | GK |  | FC Breitenrain Bern | Breitenrain |
| 01/2009 | | Vladimir Peralta | MF |  | BSC Old Boys | Old Boys |
| 12/2008 | | Sascha Studer | GK | | FC Aarau | FC Aarau |
| 07/2008 | | Riccardo Meili | GK |  | Panionios GSS | Panionios |
| 07/2008 | | Beat Weber | GK |  | SR Delémont | SR Delémont |
| 07/2008 | | Cyrill Gloor | DF | | BSC Old Boys | Old Boys |
| 07/2008 | | Simone Grippo | MF |  | Chievo Verona | Chievo Verona |
| 07/2008 | | Michel Sprunger | MF |  | FC Winterthur | FC Winterthur |