| Place | Player | Team | Goals | Penalties |
|---|---|---|---|---|
| 1. | Christian Eigler | SpVgg Greuther Fürth | 18 | 1 |
| 2. | Marek Krejci | Wacker Burghausen | 14 | 0 |
| 2. | Giovanni Federico | Karlsruher SC | 14 | 0 |
| 4. | Marius Ebbers | Alemannia Aachen | 13 | 0 |
| 4. | Regis Dorn | Kickers Offenbach | 13 | 0 |
| 6. | Edu | VfL Bochum | 12 | 3 |
| 6. | Sergiu Radu | Energie Cottbus | 12 | 0 |
| 8. | Zvjezdan Misimovic | VfL Bochum | 11 | 1 |
| 8. | Jan Schlaudraff | Alemannia Aachen | 11 | 0 |
| 8. | Rene Muller | SC Paderborn 07 | 11 | 0 |
| 8. | Suat Turker | Kickers Offenbach | 11 | 2 |
| 12. | Marcel Schied | Hansa Rostock | 9 | 0 |
| 12. | Momo Diabang | VfL Bochum | 9 | 1 |
| 12. | Marcel Ndjeng | SC Paderborn 07 | 9 | 0 |
| 12. | Paul Agostino | TSV 1860 München | 9 | 0 |
| 12. | Kevin McKenna | Energie Cottbus | 9 | 0 |
| 17. | Francis Kioyo | Energie Cottbus | 8 | 0 |
| 17. | Sascha Rosler | Alemannia Aachen | 8 | 0 |
| 17. | Andrzej Juskowiak | Erzgebirge Aue | 8 | 0 |
| 17. | Patrick Bick | Eintracht Braunschweig | 8 | 3 |
| 17. | Nico Patschinski | Rot Weiss Ahlen | 8 | 1 |
| 17. | Henrich Bencik | 1. FC Saarbrücken | 8 | 0 |
| 17. | Dragan Bogavac | Wacker Burghausen | 8 | 1 |
| 17. | Christoph Teinert | SpVgg Unterhaching | 8 | 0 |
| 17. | Enrico Kern | Hansa Rostock | 8 | 0 |
| 26. | Joshua Kennedy | Dynamo Dresden | 7 | 0 |
| 26. | Sebastian Freis | Karlsruher SC | 7 | 0 |
| 26. | Danny Fuchs | SpVgg Greuther Fürth | 7 | 0 |
| 26. | Ahmet Kuru | Eintracht Braunschweig | 7 | 0 |
| 26. | Soumaila Coulibaly | SC Freiburg | 7 | 2 |
| 31. | Christian Timm | SpVgg Greuther Fürth | 6 | 0 |
| 31. | Musemestre Bamba | Rot Weiss Ahlen | 6 | 2 |
| 31. | Stefan Buck | SpVgg Unterhaching | 6 | 2 |
| 31. | Sean Dundee | Karlsruher SC | 6 | 2 |
| 31. | Chadli Amri | 1. FC Saarbrücken | 6 | 0 |
| 31. | Yilmaz Ortulu | 1. FC Saarbrücken | 6 | 0 |
| 31. | Edmond Kapllani | Karlsruher SC | 6 | 0 |
| 31. | Dennis Aogo | SC Freiburg | 6 | 6 |
| 31. | Daniel Graf | Eintracht Braunschweig | 6 | 0 |
| 31. | Laurentiu Reghecampf | Alemannia Aachen | 6 | 2 |
| 31. | Roda Antar | SC Freiburg | 6 | 0 |
| 31. | Marco Vorbeck | Dynamo Dresden | 6 | 0 |
| 31. | Joris van Hout | VfL Bochum | 6 | 0 |
| 31. | Sven Lintjens | Sportfreunde Siegen | 6 | 0 |
| 31. | Michal Kolomaznik | TSV 1860 München | 6 | 0 |
| 46. | Erik Meijer | Alemannia Aachen | 5 | 0 |
| 46. | Daniel Thioune | Rot Weiss Ahlen | 5 | 0 |
| 46. | Babacar N'Diaye | SpVgg Unterhaching | 5 | 0 |
| 46. | Hans Andreasen | SpVgg Greuther Fürth | 5 | 0 |
| 46. | Jonathan Jager | 1. FC Saarbrücken | 5 | 0 |