| Platz | Spieler | Verein | Tore |
|---|---|---|---|
| 1 | Thorsten Bauer | Hessen Kassel | 19 |
| 2 | Matias Esteban Cenci | FSV Frankfurt | 17 |
| 3 | Petr Stoilov | SSV Jahn Regensburg | 13 |
| 4 | Marco Calamita | SC Pfullendorf | 12 |
| Daniel Sikorski | FC Bayern München II | 12 | |
| 6 | Sven Schipplock | VfB Stuttgart II | 11 |
| Marco Sailer | VfR Aalen | 11 | |
| Angelo Vaccaro | SV Stuttgarter Kickers | 11 | |
| Steffen Wohlfarth | FC Ingolstadt 04 | 11 | |
| 10 | Ersin Demir | FC Ingolstadt 04 | 10 |
| Velimir Grgic | SV Sandhausen | 10 | |
| Robert Lechleiter | SpVgg Unterhaching | 10 | |
| 13 | Sebastian Hofmann | VfB Stuttgart II | 9 |
| Christian Alder | VfR Aalen | 9 | |
| Marcus Feinbier | SV Elversberg | 9 | |
| Christian Haas | SSV Reutlingen 05 | 9 | |
| 17 | Sead Mehic | FSV Frankfurt | 8 |
| Jürgen Schmid | SV Sandhausen | 8 | |
| 19 | Peter Perchtold | VfB Stuttgart II | 7 |
| Emmanuel Akwuegbu | SV Sandhausen | 7 | |
| Manuel Duhnke | TSV München 1860 II | 7 | |
| Mathias Fetsch | Karlsruher SC II | 7 | |
| Florian Galuschka | SV Wacker Burghausen | 7 | |
| Thomas Rathgeber | SpVgg Unterhaching | 7 | |
| Manuel Schäffler | TSV München 1860 II | 7 | |
| Torsten Traub | VfR Aalen | 7 | |
| Marco Tucci | SV Stuttgarter Kickers | 7 | |
| Ricardo Villar | SpVgg Unterhaching | 7 | |
| Deniz Yilmaz | FC Bayern München II | 7 | |
| 30 | Alexander Blessin | Sportfreunde Siegen | 6 |
