| 1 | Tue 14 Aug 2012 | 42-1 v Cardiff CityNorthampton Town 2-1 Cardiff City | Capital One Cup First Round |
| 2 | Sat 18 Aug 2012 | 40-0 v RochdaleRochdale 0-0 Northampton Town | npower League Two |
| 3 | Tue 21 Aug 2012 | 42-1 v Rotherham UnitedNorthampton Town 2-1 Rotherham United | npower League Two |
| 4 | Sat 25 Aug 2012 | 43-3 v Southend UnitedNorthampton Town 3-3 Southend United | npower League Two |
| 5 | Thu 30 Aug 2012 | 41-3 v Wolverhampton WanderersNorthampton Town 1-3 Wolverhampton Wanderers | Capital One Cup Second Round |
| 6 | Sat 1 Sep 2012 | 42-3 v Plymouth ArgylePlymouth Argyle 3-2 Northampton Town | npower League Two |
| 7 | Tue 18 Sep 2012 | 41-0 v Dagenham & RedbridgeDagenham & Redbridge 0-1 Northampton Town | npower League Two |
| 8 | Sat 22 Sep 2012 | 40-0 v ChesterfieldNorthampton Town 0-0 Chesterfield | npower League Two |
| 9 | Sat 29 Sep 2012 | 43-3 v Burton AlbionBurton Albion 3-3 Northampton Town | npower League Two |
| 10 | Tue 2 Oct 2012 | 41-2 v GillinghamNorthampton Town 1-2 Gillingham | npower League Two |
| 11 | Tue 1 Jan 2013 | 43-1 v Dagenham & RedbridgeNorthampton Town 3-1 Dagenham & Redbridge | npower League Two |
| 12 | Sat 5 Jan 2013 | 43-1 v Fleetwood TownNorthampton Town 3-1 Fleetwood Town | npower League Two |
| 13 | Sat 12 Jan 2013 | 40-3 v ChesterfieldChesterfield 3-0 Northampton Town | npower League Two |
| 14 | Sat 19 Jan 2013 | 41-0 v Burton AlbionNorthampton Town 1-0 Burton Albion | npower League Two |
| 15 | Tue 22 Jan 2013 | 42-1 v Aldershot TownAldershot Town 1-2 Northampton Town | npower League Two |
| 16 | Tue 29 Jan 2013 | 40-2 v GillinghamGillingham 2-0 Northampton Town | npower League Two |
| 17 | Sat 2 Feb 2013 | 41-3 v Rotherham UnitedRotherham United 3-1 Northampton Town | npower League Two |
| 18 | Sat 9 Feb 2013 | 43-1 v RochdaleNorthampton Town 3-1 Rochdale | npower League Two |
| 19 | Sat 16 Feb 2013 | 42-1 v Southend UnitedSouthend United 1-2 Northampton Town | npower League Two |
| 20 | Tue 26 Feb 2013 | 41-0 v Bristol RoversNorthampton Town 1-0 Bristol Rovers | npower League Two |
| 21 | Sat 2 Mar 2013 | 40-3 v Exeter CityExeter City 3-0 Northampton Town | npower League Two |
| 22 | Sat 23 Mar 2013 | 41-0 v Oxford UnitedNorthampton Town 1-0 Oxford United | npower League Two |
| 23 | Mon 1 Apr 2013 | 40-1 v Cheltenham TownCheltenham Town 1-0 Northampton Town | npower League Two |
| 24 | Sat 13 Apr 2013 | 40-2 v York CityNorthampton Town 0-2 York City | npower League Two |
| 25 | Tue 16 Apr 2013 | 40-0 v Wycombe WanderersWycombe Wanderers 0-0 Northampton Town | npower League Two |
| 26 | Sat 20 Apr 2013 | 42-2 v Port ValePort Vale 2-2 Northampton Town | npower League Two |
| 27 | Sat 27 Apr 2013 | 42-0 v BarnetNorthampton Town 2-0 Barnet | npower League Two |
| 28 | Thu 2 May 2013 | 41-0 v Cheltenham TownNorthampton Town 1-0 Cheltenham Town | npower League Two Play-off Semi Final |
| 29 | Sun 5 May 2013 | 41-0 v Cheltenham TownCheltenham Town 0-1 Northampton Town | npower League Two Play-off Semi Final |
| 30 | Sat 18 May 2013 | 40-3 v Bradford CityBradford City 3-0 Northampton Town | npower League Two Play-off Final |
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