The two teams met on March 31 in the English Premier League where the Blues won 2-1, after Cardiff was ahead.
Warnock criticized the referee for saying that the English Premier League had the worst referees in the world.
The BBC reported that the FA had made three charges against Warnock about questioning the integrity of the referees, the hint of referee bias, and misconduct.
She pointed out that "Warnock" has a deadline until April 16 to present its response to the charges filed by the FA.