| 1 | Tue 14 Aug 2012 | 300-3 v Yeovil TownYeovil Town 3-0 Colchester United | Capital One Cup First Round |
| 2 | Tue 21 Aug 2012 | 302-2 v PortsmouthColchester United 2-2 Portsmouth | npower League One |
| 3 | Sat 22 Sep 2012 | 300-1 v Scunthorpe UnitedScunthorpe United 1-0 Colchester United | npower League One |
| 4 | Sat 8 Dec 2012 | 300-2 v Oldham AthleticColchester United 0-2 Oldham Athletic | npower League One |
| 5 | Sat 15 Dec 2012 | 300-1 v BournemouthBournemouth 1-0 Colchester United | npower League One |
| 6 | Sat 22 Dec 2012 | 300-1 v WalsallWalsall 1-0 Colchester United | npower League One |
| 7 | Wed 26 Dec 2012 | 301-3 v BrentfordColchester United 1-3 Brentford | npower League One |
| 8 | Tue 1 Jan 2013 | 300-3 v Crawley TownCrawley Town 3-0 Colchester United | npower League One |
| 9 | Sat 5 Jan 2013 | 300-1 v Doncaster RoversDoncaster Rovers 1-0 Colchester United | npower League One |
| 10 | Sat 12 Jan 2013 | 301-2 v Scunthorpe UnitedColchester United 1-2 Scunthorpe United | npower League One |
| 11 | Sat 26 Jan 2013 | 302-0 v WalsallColchester United 2-0 Walsall | npower League One |
| 12 | Sat 2 Feb 2013 | 303-2 v PortsmouthPortsmouth 2-3 Colchester United | npower League One |
| 13 | Tue 5 Feb 2013 | 300-1 v Swindon TownColchester United 0-1 Swindon Town | npower League One |
| 14 | Sat 16 Feb 2013 | 300-3 v Sheffield UnitedSheffield United 3-0 Colchester United | npower League One |
| 15 | Sat 23 Feb 2013 | 301-5 v Tranmere RoversColchester United 1-5 Tranmere Rovers | npower League One |
| 16 | Tue 26 Feb 2013 | 302-0 v Yeovil TownColchester United 2-0 Yeovil Town | npower League One |
| 17 | Fri 29 Mar 2013 | 300-1 v BournemouthColchester United 0-1 Bournemouth | npower League One |
| 18 | Mon 1 Apr 2013 | 301-1 v Oldham AthleticOldham Athletic 1-1 Colchester United | npower League One |
| 19 | Sat 6 Apr 2013 | 302-1 v Leyton OrientColchester United 2-1 Leyton Orient | npower League One |
| 20 | Sat 13 Apr 2013 | 301-3 v Notts CountyNotts County 3-1 Colchester United | npower League One |
| 21 | Tue 16 Apr 2013 | 300-2 v Milton Keynes DonsColchester United 0-2 Milton Keynes Dons | npower League One |
| 22 | Sat 20 Apr 2013 | 300-0 v Shrewsbury TownColchester United 0-0 Shrewsbury Town | npower League One |
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