| Pos. | Player | Goals | Team |
|---|---|---|---|
| 1 | Anton Fink | 20 | Chemnitzer (FC) |
| 1 | Fabian Klos | 20 | Arminia Bielefeld |
| 3 | Marco Grüttner | 18 | Stuttgarter Kickers |
| 4 | Hakan Calhanoglu | 17 | Karlsruher SC |
| 5 | Marcel Ziemer | 16 | 1. (FC) Saarbrücken |
| 5 | Matt Taylor | 16 | Preußen Münster |
| 5 | Marc Schnatterer | 16 | 1. (FC) Heidenheim |
| 8 | Zlatko Janjic | 15 | SV Wehen Wiesbaden |
| 8 | Koen van der Biezen | 15 | Karlsruher SC |
| 8 | Simon Zoller | 15 | VfL Osnabrück |
| 11 | Florian Niederlechner | 13 | 1. (FC) Heidenheim |
| 12 | Mathias Fetsch | 12 | Kickers Offenbach |
| 12 | Soufian Benyamina | 12 | VfB Stuttgart II |
| 12 | Nils Pfingsten-Reddig | 12 | Rot-Weiß Erfurt |
| 15 | Benjamin Förster | 11 | Chemnitzer (FC) |
| 16 | Maxi Thiel | 10 | Wacker Burghausen |
| 16 | Johan Plat | 10 | Hansa Rostock |
| 18 | Timo Staffeldt | 9 | VfL Osnabrück |
| 18 | Michael Thurk | 9 | 1. (FC) Heidenheim |
| 18 | Amaury Bischoff | 9 | Preußen Münster |
| 18 | Sebastian Hille | 9 | Arminia Bielefeld |
| 18 | Rouwen Hennings | 9 | Karlsruher SC |
| 23 | Gaetano Manno | 8 | VfL Osnabrück |
| 23 | Marcus Piossek | 8 | VfL Osnabrück |
| 23 | Ondrej Smetana | 8 | Hansa Rostock |
| 23 | Timo Furuholm | 8 | Hallescher (FC) |
| 27 | José Pierre Vunguidica | 7 | SV Wehen Wiesbaden |
| 27 | Mehmet Kara | 7 | Preußen Münster |
| 27 | Preston Zimmerman | 7 | SV Darmstadt 98 |
| 27 | Thomas Rathgeber | 7 | Kickers Offenbach |
| 27 | Philipp Kreuels | 7 | SV Babelsberg 03 |
| 27 | Marco Königs | 7 | Preußen Münster |
| 27 | Tom Weilandt | 7 | Hansa Rostock |
| 27 | Dennis Mast | 7 | Hallescher (FC) |
| 27 | Rico Benatelli | 7 | Borussia Dortmund II |
| 36 | Nazarov Dima | 6 | Preußen Münster |
| 36 | Marvin Bakalorz | 6 | Borussia Dortmund II |
| 36 | Andreas Voglsammer | 6 | SpVgg Unterhaching |
| 36 | Kefkir Oguzhan | 6 | Alemannia Aachen |
| 36 | Bálint Bajner | 6 | Borussia Dortmund II |
| 36 | Alf Mintzel | 6 | SV Wehen Wiesbaden |
| 36 | Johannes Rahn | 6 | Arminia Bielefeld |
| 36 | Milan Ivana | 6 | SV Wehen Wiesbaden |
| 36 | Mijo Tunjic | 6 | Rot-Weiß Erfurt |
| 36 | Dominik Rohracker | 6 | SpVgg Unterhaching |
| 36 | Smail Morabit | 6 | Rot-Weiß Erfurt |
| 36 | Stephan Thee | 6 | SpVgg Unterhaching |
| 36 | Tim Göhlert | 6 | 1. (FC) Heidenheim |
| 49 | Marius Laux | 5 | 1. (FC) Saarbrücken |
| 49 | Timmy Thiele | 5 | Alemannia Aachen |