| Pos. | Team | Goals against |
|---|---|---|
| 1 | Swindon Town | 39 |
| 1 | Milton Keynes Dons | 45 |
| 2 | Sheffield United | 42 |
| 3 | Doncaster Rovers | 44 |
| 4 | Milton Keynes Dons FC | 45 |
| 4 | Brentford | 47 |
| 5 | Leyton Orient | 48 |
| 5 | Tranmere Rovers | 48 |
| 7 | Notts County | 49 |
| 7 | Preston North End | 49 |
| 9 | AFC Bournemouth | 53 |
| 10 | Yeovil Town | 56 |
| 11 | Crawley Town | 58 |
| 11 | Walsall | 58 |
| 13 | Coventry City | 59 |
| 13 | Oldham Athletic | 59 |
| 15 | Shrewsbury Town | 60 |
| 16 | Crewe Alexandra | 62 |
| 17 | Stevenage Football Club | 64 |
| 18 | Hartlepool United | 67 |
| 19 | Colchester United | 68 |
| 20 | Portsmouth | 69 |
| 21 | Bury | 73 |
| 21 | Scunthorpe United | 73 |
| 23 | Carlisle United | 77 |