Additions
| from | Name | Pos | Team | Team | ||
|---|---|---|---|---|---|---|
| 02/2009 |  | Márkó Futács | FW |  | AS Nancy Lorraine B | AS Nancy (CFA) |
| 02/2009 |  | Leuteris Matsoukas | FW |  | Olympiacos FC | Olympiacos FC |
| 07/2008 |  | Philip Kraft | GK | |||
| 07/2008 | | Tim Meyer | GK | |||
| 07/2008 | | Sebastian Patzler | GK |  | 1. FC Magdeburg U19 | Magdeburg U19 |
| 07/2008 | | Ralf Bulang | DF |  | Werder Bremen U17 | Werder U17 |
| 07/2008 | | Marcel Enghardt | DF | | Werder Bremen U17 | Werder U17 |
| 07/2008 |  | Rosario Saporito | DF | | Werder Bremen U17 | Werder U17 |
| 07/2008 | | Clemens Schoppenhauer | DF | | Werder Bremen U17 | Werder U17 |
| 07/2008 | | Sebastian Sonnenberger | DF | | Werder Bremen U17 | Werder U17 |
| 07/2008 | | Thorsten Tönnies | DF | | Werder Bremen U17 | Werder U17 |
| 07/2008 | | Gökhan Aktas | MF | | Werder Bremen U17 | Werder U17 |
| 07/2008 | | Yannis Becker | MF | | Werder Bremen U17 | Werder U17 |
| 07/2008 | | Kevin Behrens | MF |  | SC Weyhe U17 | SC Weyhe U17 |
| 07/2008 | | Boris Koweschnikow | MF | | Werder Bremen U17 | Werder U17 |
| 07/2008 | | Jonas Künne | MF | |||
| 07/2008 | | André Luge | MF | | Werder Bremen U17 | Werder U17 |
| 07/2008 | | Florian Stütz | MF | |||
| 07/2008 |  | Albert Coll | FW | |||
| 07/2008 |  | Patrick Derdak | FW |  | SC Neusiedl/See 1919 | SC Neusiedl |
| 07/2008 | | Pascal Testroet | FW |  | FC Schalke 04 U19 | Schalke U19 |
| 07/2008 | | Lennart Thy | FW |  | Werder Bremen II | Werder II |
Departures
| from | Name | Pos | Team | Team | ||
|---|---|---|---|---|---|---|
| 01/2009 | | Felix Jaekel | DF |  | VSK Osterholz-Scharmbeck | Ost.-Scharmb. |
| 07/2008 | | Hergen Gerdes | GK | | Werder Bremen II | Werder II |
| 07/2008 | | Sebastian Mielitz | GK | | Werder Bremen II | Werder II |
| 07/2008 | | Florian Urbainski | GK |  | Werder Bremen III | Werder III |
| 07/2008 | | Dennis Diekmeier | DF |  | Werder Bremen | Werder |
| 07/2008 | | Björn Dreyer | DF | | Werder Bremen II | Werder II |
| 07/2008 | | Markus Fila | DF | | Werder Bremen III | Werder III |
| 07/2008 | | Jan-Philipp Heine | DF |  | VfB Oldenburg | Oldenburg |
| 07/2008 | | Timo Perthel | DF | | Werder Bremen II | Werder II |
| 07/2008 | | Adrian Schedlinski | DF |  | OFI Heraklion | OFI |
| 07/2008 | | Felix Schiller | DF | | Werder Bremen II | Werder II |
| 07/2008 | | Philipp Bargfrede | MF | | Werder Bremen | Werder |
| 07/2008 | | Musa Karli | MF |  | VfL Osnabrück U19 | Osnabrück U19 |
| 07/2008 | | Tobias Kempe | MF | | Werder Bremen II | Werder II |
| 07/2008 |  | Andreas Granskov | FW | | Werder Bremen II | Werder II |
| 07/2008 | | Alexander Neumann | FW |  | VfL Bochum II | Bochum II |