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