| Rank | Team | Pts. | Yellow cards | Second yellow cards | Straight red cards |
|---|---|---|---|---|---|
| 1 | VfL Osnabrück | 71 | 71 | 0 | 0 |
| 2 | MSV Duisburg | 73 | 70 | 1 | 0 |
| 3 | Energie Cottbus | 75 | 66 | 3 | 0 |
| 4 | Hansa Rostock | 76 | 66 | 0 | 2 |
| 5 | Viktoria Köln | 82 | 74 | 1 | 1 |
| 6 | TSV 1860 München | 83 | 71 | 4 | 0 |
| 6 | SC Verl | 83 | 70 | 1 | 2 |
| 8 | FC Ingolstadt | 85 | 72 | 1 | 2 |
| 8 | SSV Ulm 1846 Fussball | 85 | 85 | 0 | 0 |
| 10 | SV Wehen Wiesbaden | 87 | 82 | 0 | 1 |
| 11 | TSG Hoffenheim | 89 | 73 | 2 | 2 |
| 12 | Rot-Weiss Essen | 90 | 75 | 0 | 3 |
| 12 | TSV Havelse | 90 | 76 | 3 | 1 |
| 14 | Erzgebirge Aue | 92 | 82 | 0 | 2 |
| 14 | 1. FC Saarbrücken | 92 | 79 | 1 | 2 |
| 16 | VfB Stuttgart | 93 | 84 | 3 | 0 |
| 17 | Waldhof Mannheim | 100 | 75 | 5 | 2 |
| 18 | 1. FC Schweinfurt 05 | 108 | 94 | 3 | 1 |
| 19 | Alemannia Aachen | 114 | 93 | 2 | 3 |
| 20 | Jahn Regensburg | 117 | 92 | 0 | 5 |