
Taylor was assigned United's game against Liverpool on October 17 and Mourinho said before the match it would be "difficult" for the Manchester-based official to have a "very good performance."
Managers are prohibited from speaking about officials prior to matches.
Mourinho has until October 31 to respond to the charge, the FA said in a statement.
Taylor issued four yellow cards, all to United players, in the 0-0 draw.