Mourinho played teenager Raphael Varane for their Champions League win over Manchester City.
He explained: "Ramos did not play because the coach thought it best that he did not to play. We're talking about a player in the starting eleven, a great, but I want to make clear that I have no problems with him whatsoever. It's a purely football decision.
"I thought that Varane and Pepe were better together to play today."R