| 1 | |  Leicester City FC | 46 | 27 | 15 | 4 | 84 | 39 | 45 | 96 | B17:00 | 04/04/09 | R 41  Leicester City FC 2 Carlisle United 2 G17:00 | 11/04/09 | R 42 Hereford FC 1 Leicester City FC 3 G14:15 | 13/04/09 | R 43 Leicester City FC 1 Leeds United 0 G17:00 | 18/04/09 | R 44 Southend United 0 Leicester City FC 2 B21:45 | 24/04/09 | R 45 Leicester City FC 2 Scunthorpe United 2 G17:00 | 02/05/09 | R 46 Crewe Alexandra 0 Leicester City FC 3 |
| 2 | |  Peterborough United | 46 | 26 | 11 | 9 | 78 | 54 | 24 | 89 | G17:00 | 04/04/09 | R 41 Oldham Athletic 1 Peterborough United 2 B17:00 | 10/04/09 | R 42 Peterborough United 1 Cheltenham Town 1 M21:45 | 13/04/09 | R 43 Millwall 2 Peterborough United 0 G17:00 | 18/04/09 | R 44 Peterborough United 1 Stockport County FC 0 G17:00 | 25/04/09 | R 45 Colchester United 0 Peterborough United 1 B17:00 | 02/05/09 | R 46 Peterborough United 2 Swindon Town 2 |
| 3 | |  Milton Keynes Dons | 46 | 26 | 9 | 11 | 83 | 47 | 36 | 87 | G17:00 | 18/04/09 | R 44 Scunthorpe United 0 Milton Keynes Dons 1 M17:00 | 25/04/09 | R 45 Milton Keynes Dons 0 Walsall 1 G21:45 | 28/04/09 | R 35 Northampton Town 0 Milton Keynes Dons 1 G17:00 | 02/05/09 | R 46 Hereford FC 0 Milton Keynes Dons 1 B21:45 | 08/05/09 | R semifinal Scunthorpe United 1 Milton Keynes Dons 1 M21:45 | 15/05/09 | R semifinal Milton Keynes Dons (6) 0 Scunthorpe United (7) 0 |
| 4 | |  Leeds United | 46 | 26 | 6 | 14 | 77 | 49 | 28 | 84 | M14:15 | 13/04/09 | R 43 Leicester City FC 1 Leeds United 0 G17:00 | 18/04/09 | R 44 Leeds United 3 Tranmere Rovers FC 1 G17:00 | 25/04/09 | R 45 Hartlepool United 0 Leeds United 1 G17:00 | 02/05/09 | R 46 Leeds United 3 Northampton Town 0 M14:45 | 09/05/09 | R semifinal Millwall 1 Leeds United 0 B21:45 | 14/05/09 | R semifinal Leeds United 1 Millwall 1 |
| 5 | |  Millwall | 46 | 25 | 7 | 14 | 63 | 53 | 10 | 82 | M17:00 | 18/04/09 | R 44 Bristol Rovers 4 Millwall 2 G17:00 | 25/04/09 | R 45 Millwall 2 Leyton Orient London 1 M17:00 | 02/05/09 | R 46 Carlisle United 2 Millwall 0 G14:45 | 09/05/09 | R semifinal Millwall 1 Leeds United 0 B21:45 | 14/05/09 | R semifinal Leeds United 1 Millwall 1 M15:00 | 24/05/09 | R final Millwall 2 Scunthorpe United 3 |
| 6 | |  Scunthorpe United | 46 | 22 | 10 | 14 | 82 | 63 | 19 | 76 | B21:45 | 24/04/09 | R 45 Leicester City FC 2 Scunthorpe United 2 G21:30 | 28/04/09 | R 31 Scunthorpe United 3 Cheltenham Town 0 B17:00 | 02/05/09 | R 46 Scunthorpe United 1 Tranmere Rovers FC 1 B21:45 | 08/05/09 | R semifinal Scunthorpe United 1 Milton Keynes Dons 1 G21:45 | 15/05/09 | R semifinal Milton Keynes Dons (6) 0 Scunthorpe United (7) 0 G15:00 | 24/05/09 | R final Millwall 2 Scunthorpe United 3 |
| 7 | |  Tranmere Rovers FC | 46 | 21 | 11 | 14 | 62 | 49 | 13 | 74 | G17:00 | 05/04/09 | R 41 Tranmere Rovers FC 2 Bristol Rovers 0 G17:00 | 11/04/09 | R 42 Walsall 0 Tranmere Rovers FC 1 G17:00 | 13/04/09 | R 43 Tranmere Rovers FC 2 Hereford FC 1 M17:00 | 18/04/09 | R 44 Leeds United 3 Tranmere Rovers FC 1 B17:00 | 25/04/09 | R 45 Tranmere Rovers FC 1 Yeovil Town 1 B17:00 | 02/05/09 | R 46 Scunthorpe United 1 Tranmere Rovers FC 1 |
| 8 | |  Southend United | 46 | 21 | 8 | 17 | 58 | 61 | -3 | 71 | G17:00 | 04/04/09 | R 41 Huddersfield Town 0 Southend United 1 M15:00 | 10/04/09 | R 42 Southend United 0 Milton Keynes Dons 2 G17:00 | 13/04/09 | R 43 Northampton Town 2 Southend United 3 M17:00 | 18/04/09 | R 44 Southend United 0 Leicester City FC 2 B17:00 | 25/04/09 | R 45 Oldham Athletic 1 Southend United 1 G17:00 | 02/05/09 | R 46 Southend United 2 Cheltenham Town 0 |
| 9 | |  Huddersfield Town | 46 | 18 | 14 | 14 | 62 | 65 | -3 | 68 | M17:00 | 04/04/09 | R 41 Huddersfield Town 0 Southend United 1 G21:45 | 10/04/09 | R 42 Scunthorpe United 1 Huddersfield Town 2 G17:00 | 13/04/09 | R 43 Huddersfield Town 1 Carlisle United 0 G17:00 | 18/04/09 | R 44 Walsall 2 Huddersfield Town 3 B17:00 | 25/04/09 | R 45 Huddersfield Town 2 Brighton & Hove Albion FC 2 B17:00 | 02/05/09 | R 46 Leyton Orient London 1 Huddersfield Town 1 |
| 10 | |  Oldham Athletic | 46 | 16 | 17 | 13 | 66 | 65 | 1 | 65 | M17:00 | 04/04/09 | R 41 Oldham Athletic 1 Peterborough United 2 B17:00 | 10/04/09 | R 42 Carlisle United 1 Oldham Athletic 1 B17:00 | 13/04/09 | R 43 Oldham Athletic 1 Crewe Alexandra 1 M17:00 | 18/04/09 | R 44 Brighton & Hove Albion FC 3 Oldham Athletic 1 B17:00 | 25/04/09 | R 45 Oldham Athletic 1 Southend United 1 G17:00 | 02/05/09 | R 46 Walsall 1 Oldham Athletic 2 |
| 11 | |  Bristol Rovers | 46 | 17 | 12 | 17 | 79 | 61 | 18 | 63 | G17:00 | 10/04/09 | R 42 Bristol Rovers 1 Northampton Town 0 M17:00 | 13/04/09 | R 43 Milton Keynes Dons 2 Bristol Rovers 1 G17:00 | 18/04/09 | R 44 Bristol Rovers 4 Millwall 2 M21:45 | 21/04/09 | R 35 Bristol Rovers 1 Brighton & Hove Albion FC 2 M14:00 | 25/04/09 | R 45 Swindon Town 2 Bristol Rovers 1 G17:00 | 02/05/09 | R 46 Bristol Rovers 4 Hartlepool United 1 |
| 12 | |  Colchester United | 46 | 18 | 9 | 19 | 58 | 58 | 0 | 63 | M17:00 | 04/04/09 | R 41 Colchester United 0 Leeds United 1 M17:00 | 11/04/09 | R 42 Leyton Orient London 2 Colchester United 1 M17:00 | 13/04/09 | R 43 Colchester United 0 Brighton & Hove Albion FC 1 G17:00 | 18/04/09 | R 44 Hereford FC 0 Colchester United 2 M17:00 | 25/04/09 | R 45 Colchester United 0 Peterborough United 1 G17:00 | 02/05/09 | R 46 Yeovil Town 0 Colchester United 2 |
| 13 | |  Walsall | 46 | 17 | 10 | 19 | 61 | 66 | -5 | 61 | M17:00 | 04/04/09 | R 41 Millwall 3 Walsall 1 M17:00 | 11/04/09 | R 42 Walsall 0 Tranmere Rovers FC 1 G17:00 | 13/04/09 | R 43 Stockport County FC 1 Walsall 2 M17:00 | 18/04/09 | R 44 Walsall 2 Huddersfield Town 3 G17:00 | 25/04/09 | R 45 Milton Keynes Dons 0 Walsall 1 M17:00 | 02/05/09 | R 46 Walsall 1 Oldham Athletic 2 |
| 14 | |  Leyton Orient London | 46 | 15 | 11 | 20 | 45 | 57 | -12 | 56 | B21:45 | 07/04/09 | R 30 Leyton Orient London 2 Leeds United 2 G17:00 | 11/04/09 | R 42 Leyton Orient London 2 Colchester United 1 G17:00 | 13/04/09 | R 43 Swindon Town 0 Leyton Orient London 1 M17:00 | 18/04/09 | R 44 Leyton Orient London 1 Northampton Town 3 M17:00 | 25/04/09 | R 45 Millwall 2 Leyton Orient London 1 B17:00 | 02/05/09 | R 46 Leyton Orient London 1 Huddersfield Town 1 |
| 15 | |  Swindon Town | 46 | 12 | 17 | 17 | 68 | 71 | -3 | 53 | B17:00 | 04/04/09 | R 41 Swindon Town 0 Crewe Alexandra 0 G17:00 | 11/04/09 | R 42 Brighton & Hove Albion FC 2 Swindon Town 3 M17:00 | 13/04/09 | R 43 Swindon Town 0 Leyton Orient London 1 B17:00 | 18/04/09 | R 44 Carlisle United 1 Swindon Town 1 G14:00 | 25/04/09 | R 45 Swindon Town 2 Bristol Rovers 1 B17:00 | 02/05/09 | R 46 Peterborough United 2 Swindon Town 2 |
| 16 | |  Brighton & Hove Albion FC | 46 | 13 | 13 | 20 | 55 | 70 | -15 | 52 | M17:00 | 11/04/09 | R 42 Brighton & Hove Albion FC 2 Swindon Town 3 G17:00 | 13/04/09 | R 43 Colchester United 0 Brighton & Hove Albion FC 1 G17:00 | 18/04/09 | R 44 Brighton & Hove Albion FC 3 Oldham Athletic 1 G21:45 | 21/04/09 | R 35 Bristol Rovers 1 Brighton & Hove Albion FC 2 B17:00 | 25/04/09 | R 45 Huddersfield Town 2 Brighton & Hove Albion FC 2 G17:00 | 02/05/09 | R 46 Brighton & Hove Albion FC 1 Stockport County FC 0 |
| 17 | |  Yeovil Town | 46 | 12 | 15 | 19 | 41 | 66 | -25 | 51 | G17:00 | 10/04/09 | R 42 Yeovil Town 2 Millwall 0 M17:00 | 13/04/09 | R 43 Cheltenham Town 1 Yeovil Town 0 M17:00 | 18/04/09 | R 44 Yeovil Town 2 Hartlepool United 3 B21:45 | 21/04/09 | R 35 Yeovil Town 2 Hereford FC 2 B17:00 | 25/04/09 | R 45 Tranmere Rovers FC 1 Yeovil Town 1 M17:00 | 02/05/09 | R 46 Yeovil Town 0 Colchester United 2 |
| 18 | |  Stockport County FC | 46 | 16 | 12 | 18 | 59 | 57 | 2 | 50 | B17:00 | 04/04/09 | R 41 Stockport County FC 0 Yeovil Town 0 M17:00 | 11/04/09 | R 42 Leeds United 1 Stockport County FC 0 M17:00 | 13/04/09 | R 43 Stockport County FC 1 Walsall 2 M17:00 | 18/04/09 | R 44 Peterborough United 1 Stockport County FC 0 G21:45 | 24/04/09 | R 45 Stockport County FC 4 Crewe Alexandra 3 M17:00 | 02/05/09 | R 46 Brighton & Hove Albion FC 1 Stockport County FC 0 |
| 19 | |  Hartlepool United | 46 | 13 | 11 | 22 | 66 | 79 | -13 | 50 | G17:00 | 04/04/09 | R 41 Hartlepool United 4 Hereford FC 2 B17:00 | 11/04/09 | R 42 Crewe Alexandra 0 Hartlepool United 0 M17:00 | 13/04/09 | R 43 Hartlepool United 2 Scunthorpe United 3 G17:00 | 18/04/09 | R 44 Yeovil Town 2 Hartlepool United 3 M17:00 | 25/04/09 | R 45 Hartlepool United 0 Leeds United 1 M17:00 | 02/05/09 | R 46 Bristol Rovers 4 Hartlepool United 1 |
| 20 | |  Carlisle United | 46 | 12 | 14 | 20 | 56 | 69 | -13 | 50 | B17:00 | 04/04/09 | R 41 Leicester City FC 2 Carlisle United 2 B17:00 | 10/04/09 | R 42 Carlisle United 1 Oldham Athletic 1 M17:00 | 13/04/09 | R 43 Huddersfield Town 1 Carlisle United 0 B17:00 | 18/04/09 | R 44 Carlisle United 1 Swindon Town 1 B17:00 | 25/04/09 | R 45 Cheltenham Town 1 Carlisle United 1 G17:00 | 02/05/09 | R 46 Carlisle United 2 Millwall 0 |
| 21 | |  Northampton Town | 46 | 12 | 13 | 21 | 61 | 65 | -4 | 49 | M17:00 | 13/04/09 | R 43 Northampton Town 2 Southend United 3 G17:00 | 18/04/09 | R 44 Leyton Orient London 1 Northampton Town 3 B21:45 | 21/04/09 | R 41 Northampton Town 3 Scunthorpe United 3 G17:00 | 25/04/09 | R 45 Northampton Town 2 Hereford FC 1 M21:45 | 28/04/09 | R 35 Northampton Town 0 Milton Keynes Dons 1 M17:00 | 02/05/09 | R 46 Leeds United 3 Northampton Town 0 |
| 22 | |  Crewe Alexandra | 46 | 12 | 10 | 24 | 59 | 82 | -23 | 46 | B17:00 | 04/04/09 | R 41 Swindon Town 0 Crewe Alexandra 0 B17:00 | 11/04/09 | R 42 Crewe Alexandra 0 Hartlepool United 0 B17:00 | 13/04/09 | R 43 Oldham Athletic 1 Crewe Alexandra 1 M17:00 | 18/04/09 | R 44 Crewe Alexandra 1 Cheltenham Town 2 M21:45 | 24/04/09 | R 45 Stockport County FC 4 Crewe Alexandra 3 M17:00 | 02/05/09 | R 46 Crewe Alexandra 0 Leicester City FC 3 |
| 23 | |  Cheltenham Town | 46 | 9 | 12 | 25 | 51 | 91 | -40 | 39 | B17:00 | 10/04/09 | R 42 Peterborough United 1 Cheltenham Town 1 G17:00 | 13/04/09 | R 43 Cheltenham Town 1 Yeovil Town 0 G17:00 | 18/04/09 | R 44 Crewe Alexandra 1 Cheltenham Town 2 B17:00 | 25/04/09 | R 45 Cheltenham Town 1 Carlisle United 1 M21:30 | 28/04/09 | R 31 Scunthorpe United 3 Cheltenham Town 0 M17:00 | 02/05/09 | R 46 Southend United 2 Cheltenham Town 0 |
| 24 | |  Hereford FC | 46 | 9 | 7 | 30 | 42 | 79 | -37 | 34 | M17:00 | 11/04/09 | R 42 Hereford FC 1 Leicester City FC 3 M17:00 | 13/04/09 | R 43 Tranmere Rovers FC 2 Hereford FC 1 M17:00 | 18/04/09 | R 44 Hereford FC 0 Colchester United 2 B21:45 | 21/04/09 | R 35 Yeovil Town 2 Hereford FC 2 M17:00 | 25/04/09 | R 45 Northampton Town 2 Hereford FC 1 M17:00 | 02/05/09 | R 46 Hereford FC 0 Milton Keynes Dons 1 |
