Ibrahimovic returned from a six-month absence from a serious knee injury in November but after making a handful of appearances he aggravated the injury last month.
Speaking during a press conference at the Aon Training Complex on Friday, Mourinho said: "Zlatan is injured, or is not totally happy with his condition".
"He fought like a tiger to be back which he did". "He consulted our doctors and made the decision to stop. When [he is] feeling good, [he will] come back to work".
Ibrahimovic, unable to find his rhythm since returning from a long-term problem to the same knee past year, will now spend time recovering before beginning to build up fitness once again in a couple of weeks' time.
They welcome managerless Stoke City to Old Trafford on Monday evening, and the home win can be backed at a price of 2/9.
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Valencia has been missing with a problem that he sustained during the victory over West Bromwich Albion at The Hawthorns on 17 December.
The 2015-16 champions are prepared to back manager Claude Puel in keeping their best players, though it remains to be seen whether they can keep ahold of winger Riyad Mahrez.
Meanwhile, Ivory Coast worldwide Eric Bailly is still injured and is definitely unavailable to face Stoke but could be back around the end of the month. The facilities were unbelievable.
Now, the Portuguese boss has set a time frame on for when he should return to training. "The only word I can say is he is a phenomenal player, apart from that an Arsenal player and I feel I shouldn't say much more than this".
Though, the player is struggling to get back in full flow this season and looks to have been sidelined in recent weeks.