| 1 | Tue 26 Jul 2016 | 41-3 v EvertonMilton Keynes Dons 1-3 Everton | Friendly |
| 2 | Tue 26 Jul 2016 | 41-3 v EvertonMilton Keynes Dons 1-3 Everton | Friendly |
| 3 | Sat 6 Aug 2016 | 41-0 v Shrewsbury TownShrewsbury Town 0-1 Milton Keynes Dons | Sky Bet League One |
| 4 | Sat 13 Aug 2016 | 42-2 v MillwallMilton Keynes Dons 2-2 Millwall | Sky Bet League One |
| 5 | Tue 16 Aug 2016 | 41-2 v Bradford CityMilton Keynes Dons 1-2 Bradford City | Sky Bet League One |
| 6 | Sat 20 Aug 2016 | 41-0 v RochdaleRochdale 0-1 Milton Keynes Dons | Sky Bet League One |
| 7 | Sat 27 Aug 2016 | 40-2 v Peterborough UnitedMilton Keynes Dons 0-2 Peterborough United | Sky Bet League One |
| 8 | Tue 30 Aug 2016 | 42-2 v BarnetMilton Keynes Dons 2-2 Barnet | Checkatrade Trophy Southern Group F |
| 9 | Sun 4 Sep 2016 | 42-3 v Northampton TownNorthampton Town 3-2 Milton Keynes Dons | Sky Bet League One |
| 10 | Sat 10 Sep 2016 | 41-1 v Bolton WanderersBolton Wanderers 1-1 Milton Keynes Dons | Sky Bet League One |
| 11 | Sat 17 Sep 2016 | 40-0 v Oxford UnitedMilton Keynes Dons 0-0 Oxford United | Sky Bet League One |
| 12 | Sat 24 Sep 2016 | 44-1 v Fleetwood TownFleetwood Town 1-4 Milton Keynes Dons | Sky Bet League One |
| 13 | Tue 27 Sep 2016 | 41-3 v BuryMilton Keynes Dons 1-3 Bury | Sky Bet League One |
| 14 | Sat 1 Oct 2016 | 42-0 v Oldham AthleticOldham Athletic 0-2 Milton Keynes Dons | Sky Bet League One |
| 15 | Sun 9 Oct 2016 | 40-1 v Port ValeMilton Keynes Dons 0-1 Port Vale | Sky Bet League One |
| 16 | Sat 15 Oct 2016 | 41-2 v Scunthorpe UnitedScunthorpe United 2-1 Milton Keynes Dons | Sky Bet League One |
| 17 | Sat 22 Oct 2016 | 40-3 v Southend UnitedMilton Keynes Dons 0-3 Southend United | Sky Bet League One |
| 18 | Sat 29 Oct 2016 | 41-2 v Sheffield UnitedSheffield United 2-1 Milton Keynes Dons | Sky Bet League One |
| 19 | Sat 5 Nov 2016 | 43-2 v Spennymoor TownMilton Keynes Dons 3-2 Spennymoor Town | Emirates FA Cup First Round |
| 20 | Sat 19 Nov 2016 | 40-0 v Bristol RoversBristol Rovers 0-0 Milton Keynes Dons | Sky Bet League One |
| 21 | Tue 22 Nov 2016 | 42-3 v ChesterfieldMilton Keynes Dons 2-3 Chesterfield | Sky Bet League One |
| 22 | Sat 26 Nov 2016 | 42-1 v Coventry CityCoventry City 1-2 Milton Keynes Dons | Sky Bet League One |
| 23 | Sat 3 Dec 2016 | 40-0 v Charlton AthleticCharlton Athletic 0-0 Milton Keynes Dons | Emirates FA Cup Second Round |
| 24 | Mon 26 Dec 2016 | 40-1 v Charlton AthleticMilton Keynes Dons 0-1 Charlton Athletic | Sky Bet League One |
| 25 | Fri 30 Dec 2016 | 43-2 v Swindon TownMilton Keynes Dons 3-2 Swindon Town | Sky Bet League One |
| 26 | Mon 2 Jan 2017 | 40-0 v ChesterfieldChesterfield 0-0 Milton Keynes Dons | Sky Bet League One |
| 27 | Sat 7 Jan 2017 | 40-2 v Brighton & Hove AlbionBrighton & Hove Albion 2-0 Milton Keynes Dons | Emirates FA Cup Third Round |
| 28 | Sat 21 Jan 2017 | 45-3 v Northampton TownMilton Keynes Dons 5-3 Northampton Town | Sky Bet League One |
| 29 | Sat 28 Jan 2017 | 44-0 v Peterborough UnitedPeterborough United 0-4 Milton Keynes Dons | Sky Bet League One |
| 30 | Sat 4 Feb 2017 | 41-1 v Bolton WanderersMilton Keynes Dons 1-1 Bolton Wanderers | Sky Bet League One |
| 31 | Tue 7 Feb 2017 | 41-0 v Oldham AthleticMilton Keynes Dons 1-0 Oldham Athletic | Sky Bet League One |
| 32 | Sat 11 Feb 2017 | 40-1 v Oxford UnitedOxford United 1-0 Milton Keynes Dons | Sky Bet League One |
| 33 | Sat 25 Feb 2017 | 42-1 v Shrewsbury TownMilton Keynes Dons 2-1 Shrewsbury Town | Sky Bet League One |
| 34 | Tue 28 Feb 2017 | 42-2 v Bradford CityBradford City 2-2 Milton Keynes Dons | Sky Bet League One |
| 35 | Sat 4 Mar 2017 | 41-2 v MillwallMillwall 2-1 Milton Keynes Dons | Sky Bet League One |
| 36 | Sat 11 Mar 2017 | 42-2 v RochdaleMilton Keynes Dons 2-2 Rochdale | Sky Bet League One |
| 37 | Tue 14 Mar 2017 | 40-2 v AFC WimbledonAFC Wimbledon 2-0 Milton Keynes Dons | Sky Bet League One |
| 38 | Sat 18 Mar 2017 | 41-0 v Coventry CityMilton Keynes Dons 1-0 Coventry City | Sky Bet League One |
| 39 | Sat 25 Mar 2017 | 40-0 v Port ValePort Vale 0-0 Milton Keynes Dons | Sky Bet League One |
| 40 | Sat 1 Apr 2017 | 43-2 v GillinghamMilton Keynes Dons 3-2 Gillingham | Sky Bet League One |
| 41 | Tue 4 Apr 2017 | 42-0 v Charlton AthleticCharlton Athletic 0-2 Milton Keynes Dons | Sky Bet League One |
| 42 | Sat 8 Apr 2017 | 41-1 v Swindon TownSwindon Town 1-1 Milton Keynes Dons | Sky Bet League One |
| 43 | Fri 14 Apr 2017 | 40-1 v Scunthorpe UnitedMilton Keynes Dons 0-1 Scunthorpe United | Sky Bet League One |
| 44 | Mon 17 Apr 2017 | 42-1 v Southend UnitedSouthend United 1-2 Milton Keynes Dons | Sky Bet League One |
| 45 | Sat 22 Apr 2017 | 40-3 v Sheffield UnitedMilton Keynes Dons 0-3 Sheffield United | Sky Bet League One |
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