Saison:
| Platz | Spieler | Verein | Tore | |
|---|---|---|---|---|
| 1 | Anton Fink | SpVgg Unterhaching | 21 | |
| 2 | Torsten Oehrl | Werder Bremen II | 17 | |
| 2 | Sercan Güvenisik | SC Paderborn 07 | 17 | |
| 4 | Karim Benyamina | 1.FC Union Berlin | 16 | |
| 5 | Thomas Müller | FC Bayern München II | 15 | |
| 6 | Frank Löning | SC Paderborn 07 | 14 | |
| 6 | Halil Savran | SG Dynamo Dresden | 14 | |
| 8 | Massimo Cannizzaro | FC Rot-Weiß Erfurt | 12 | |
| 8 | Marco Sailer | VfR Aalen | 12 | |
| 10 | Enrico Neitzel | BSV Kickers Emden | 11 | |
| 10 | Pavel Dobry | SG Dynamo Dresden | 11 | |
| 10 | Marco Christ | Fortuna Düsseldorf | 11 | |
| 10 | Emre Öztürk | SV Sandhausen | 11 | |
| 10 | Shergo Biran | 1.FC Union Berlin | 11 | |
| 10 | Marco Calamita | SV Wacker Burghausen | 11 | |
| 16 | Arne Feick | FC Erzgebirge Aue | 10 | |
| 16 | Thomas Bröker | SG Dynamo Dresden | 10 | |
| 16 | Salvatore Amirante | FC Carl Zeiss Jena | 10 | |
| 16 | Sebastian Hähnge | FC Carl Zeiss Jena | 10 | |
| 16 | Daniel Sikorski | FC Bayern München II | 10 | |
| 21 | Julian Schieber | VfB Stuttgart II | 9 | |
| 21 | Albert Bunjaku | FC Rot-Weiß Erfurt | 9 | |
| 21 | Tufan Tosunoglu | Kickers Offenbach | 9 | |
| 21 | Roberto Pinto | SV Sandhausen | 9 | |
| 25 | Stefan Zinnow | Kickers Offenbach | 8 | |
| 25 | Robert Zillner | SpVgg Unterhaching | 8 | |
| 25 | Dominick Kumbela | SC Paderborn 07 | 8 | |
| 25 | Ranisav Jovanovic | Fortuna Düsseldorf | 8 | |
| 29 | Sebastian Rudy | VfB Stuttgart II | 7 | |
| 29 | Johannes Rahn | VfB Stuttgart II | 7 |
