Jones, 20, has yet to play this season after hurting his back in pre-season and suffered this latest injury in training this week.
A club spokesperson told the club's website: "Phil Jones has had surgery on a knee meniscus tear sustained in training that will require six to eight weeks of rehabilitation."
He is one of a number of sidelined United players including Wayne Rooney (gashed leg); Ashley Young (knee); Chris Smalling (foot)and Darren Fletcher who has a bowel illness.
Jones, whose last competitive appearance for United was on the last day of last season, went for a scan on his right knee which has confirmed he needs rest and rehabilitation through to early November at least.
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