| 2006-12-30 | ChestervMilton Keynes DonsLeague Two · England | 0–3 | League Two · England |
| 2006-12-26 | TorquayvMilton Keynes DonsLeague Two · England | 0–2 | League Two · England |
| 2006-12-23 | Milton Keynes DonsvRochdaleLeague Two · England | 2–1 | League Two · England |
| 2006-12-16 | Milton Keynes DonsvWycombeLeague Two · England | 3–1 | League Two · England |
| 2006-12-09 | AccringtonvMilton Keynes DonsLeague Two · England | 3–4 | League Two · England |
| 2006-12-05 | Milton Keynes DonsvStockportLeague Two · England | 2–0 | League Two · England |
| 2006-11-25 | DarlingtonvMilton Keynes DonsLeague Two · England | 1–0 | League Two · England |
| 2006-11-18 | Milton Keynes DonsvShrewsburyLeague Two · England | 2–0 | League Two · England |
| 2006-11-04 | GrimsbyvMilton Keynes DonsLeague Two · England | 1–3 | League Two · England |
| 2006-10-28 | WalsallvMilton Keynes DonsLeague Two · England | 0–0 | League Two · England |
| 2006-10-21 | Milton Keynes DonsvHerefordLeague Two · England | 1–3 | League Two · England |
| 2006-10-14 | WrexhamvMilton Keynes DonsLeague Two · England | 1–2 | League Two · England |
| 2006-10-06 | Milton Keynes DonsvPeterboroLeague Two · England | 0–2 | League Two · England |
| 2006-09-30 | BarnetvMilton Keynes DonsLeague Two · England | 3–3 | League Two · England |
| 2006-09-26 | Milton Keynes DonsvTorquayLeague Two · England | 3–2 | League Two · England |
| 2006-09-23 | Milton Keynes DonsvChesterLeague Two · England | 1–2 | League Two · England |
| 2006-09-16 | LincolnvMilton Keynes DonsLeague Two · England | 2–3 | League Two · England |
| 2006-09-12 | SwindonvMilton Keynes DonsLeague Two · England | 2–1 | League Two · England |
| 2006-09-09 | Milton Keynes DonsvHartlepoolLeague Two · England | 0–0 | League Two · England |
| 2006-09-02 | Milton Keynes DonsvNotts CountyLeague Two · England | 3–2 | League Two · England |
| 2006-08-26 | BostonvMilton Keynes DonsLeague Two · England | 0–1 | League Two · England |
| 2006-08-19 | Milton Keynes DonsvBristol RvsLeague Two · England | 2–0 | League Two · England |
| 2006-08-12 | MacclesfieldvMilton Keynes DonsLeague Two · England | 1–2 | League Two · England |
| 2006-08-08 | MansfieldvMilton Keynes DonsLeague Two · England | 2–1 | League Two · England |
| 2006-08-05 | Milton Keynes DonsvBuryLeague Two · England | 2–1 | League Two · England |