| Pos | Team | PL | GD | PTS |
|---|---|---|---|---|
| 1 |  Energie Cottbus | 19 | +9 | 36 |
| 2 |  Verl | 19 | +18 | 35 |
| 3 |  MSV Duisburg | 19 | +10 | 34 |
| 4 |  Rot-Weiß Essen | 19 | +6 | 34 |
| 5 |  Hansa Rostock | 19 | +12 | 32 |
| 6 |  VfL Osnabrück | 19 | +5 | 32 |
| 7 |  Hoffenheim II | 19 | +13 | 31 |
| 8 |  TSV 1860 München | 19 | 0 | 30 |
| 9 |  Waldhof Mannheim | 19 | +1 | 29 |
| 10 |  Stuttgart II | 19 | 0 | 29 |
| 11 |  SV Wehen | 19 | +2 | 28 |
| 12 |  FC Viktoria Köln | 19 | +3 | 27 |
| 13 |  SSV Jahn Regensburg | 19 | -1 | 24 |
| 14 |  FC Ingolstadt 04 | 19 | +2 | 22 |
| 15 |  FC Saarbrücken | 19 | -2 | 22 |
| 16 |  Erzgebirge Aue | 19 | -5 | 22 |
| 17 |  Alemannia Aachen | 19 | -6 | 21 |
| 18 |  SSV Ulm 1846 | 19 | -18 | 16 |
| 19 |  Havelse | 19 | -15 | 13 |
| 20 |  FC Schweinfurt 05 | 19 | -34 | 6 |
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