| Pos | Team | PL | GD | PTS |
|---|---|---|---|---|
| 3. Liga | ||||
| 1 |  Energie Cottbus | 25 | +13 | 48 |
| 2 |  MSV Duisburg | 25 | +14 | 46 |
| 3 |  VfL Osnabrück | 25 | +14 | 46 |
| 4 |  Verl | 25 | +22 | 44 |
| 5 |  Rot-Weiß Essen | 25 | +7 | 43 |
| 6 |  SV Wehen | 25 | +10 | 41 |
| 7 |  Hansa Rostock | 25 | +13 | 40 |
| 8 |  TSV 1860 München | 25 | +5 | 39 |
| 9 |  FC Ingolstadt 04 | 25 | +10 | 36 |
| 10 |  Waldhof Mannheim | 25 | -5 | 36 |
| 11 |  FC Viktoria Köln | 25 | +3 | 35 |
| 12 |  Stuttgart II | 25 | -8 | 35 |
| 13 |  Hoffenheim II | 25 | +2 | 32 |
| 14 |  Alemannia Aachen | 25 | -4 | 32 |
| 15 |  SSV Jahn Regensburg | 25 | -5 | 31 |
| 16 |  FC Saarbrücken | 25 | -3 | 28 |
| 17 |  Erzgebirge Aue | 25 | -12 | 24 |
| 18 |  SSV Ulm 1846 | 25 | -18 | 23 |
| 19 |  Havelse | 25 | -20 | 19 |
| 20 |  FC Schweinfurt 05 | 25 | -38 | 10 |