The victory over Millwall stretched an unbeaten run to eight games.
Both sides made changes from their last games. Wimbledon bringing Arsenal's Ben Chorley into a revamped back four where only Peter Hawkins survived, Jermaine Darlington and Trond Andersen came back and Alex Tapp returned in midfield.
The Lions' only change saw Matt Lawrence in for Steven Reid.
The first half was full of errors with Dons keeper Kelvin Davis a main culprit. He sliced an easy clearance for a corner and then presented Andy Roberts with an easy opening. The Dons defence slammed the door shut leaving Roberts holding his head in frustration.
At the other end Lions keeper Tony Warner also miss hit a clearance to conceded a corner.
After that Millwall's keeper was magnificent. Neil Shipperley and David Connolly hit six goalbound efforts between them and Warner blocked all but Shipperley's18th minute opener.
The Dons broke quickly down the right after stopping a Millwall attack. The cross took a deflection which unbalanced Warner and before he could recover Shipperley nipped in and slotted home.
The scruffy second half produced little goalmouth action that got a reward, before sub Patrick Agyemang ran through to seal the win.
Earlier he and Connolly along with Nigel Reo-Coker had lost out to the alert Warner in one-on-ones.
Millwall have youngsters who have yet to learn their trade, but their reliance on veterans Steve Claridge and Dennis Wise to come on and save them was misplaced.
Claridge defied his years and chased the ball, linking up with fellow sub Christophe Kinet but to no end product.
Wise produce nothing more than his almost usual tussle with the other team. He chose defender Hawkins and made no impact on him.
Millwall were woeful and for periods they dragged the Dons down to their level.