Oxford beat 10-man Mansfield 3-1 at the One Call Stadium to take top spot in Sky Bet League Two
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Samuelson told AFC Wimbledon's official website: "We put the candidates through a very exacting interview process.
"They were all very impressive but it wasn't difficult to pick out the outstanding candidate for the role.
"With four graduates from our academy already in the first team squad, Neal's background in bringing through young players fits perfectly with our commitment to youth development. We are looking forward to working with him."
AFC Wimbledon have appointed Neal Ardley as their new manager following the recent departure of Terry Brown. The 40-year-old played the majority of his career with Wimbledon prior to the club being moved to Milton Keynes.
AFC Wimbledon have parted company with manager Terry Brown, with the club sitting fourth from bottom in League Two.
Brown took the south London club into the Football League for the first time since they were founded in 2002, but collected just four points from the opening seven games this season.
Club chief executive Erik Samuelson said: "This is a terribly sad moment for all of us. Terry has been a wonderful manager and a fantastic ambassador for the club since we appointed him over five years ago."
AFC Wimbledon's talented forward Byron Harrison is wanted by Cheltenham Town boss Mark Yates as he looks to improve his club's attacking threat.