"I didn't like the referee today, too much of a home team referee," Tudor told the BBC after the game on March 1st.
"All the decisions were on their side. He doesn't understand football, the feeling of what is wrong and what is right."
The FA said his remarks "imply bias and/or question integrity and/or are personally offensive in relation to a match official," giving Tudor until March 23rd to respond.
Tottenham, who are 16th in the league, host Nottingham Forest on Sunday.