Mourinho must decide whether to play his skipper against Leicester on Saturday.
He said: "Wayne is my captain but in football, every one is the same, and if he has to go on the bench, he goes on the bench, if he has to stay at home, he stays at home.
"But that doesn't mean that you don't trust him or you have a problem. Not at all. We have no problems.' He also challenged Rooney to fight back, adding: 'I still think it's part of the job. You have to cope with it, you have to realise you are very lucky to be in our position. You must be very lucky to be Manchester United manager, Man Utd player, Man Utd physio, Man Utd doctor, Man Utd kit man."