Fulham have been handed a £30,000 fine while Everton a £25,000 punishment.
Everton's David Weir and Fulham's Luis Boa Morte were sent-off in the game and the dismissals led to a bust-up involving a number of players from both sides.
The Premiership duo were initially charged with failing to control their players, but Everton's charge was reduced to the lesser offence of disorderly conduct.
The hearing was held in Birmingham and attended by Everton boss Walter Smith, chief executive Michael Dunford, chairman Sir Phillip Carter and Weir.
"We had a fair hearing and while we are disappointed with the outcome, we have to accept it," said Dunford.
Fulham are considering to lodge an appeal over the decision.
"The club is extremely disappointed by the decision and is in the process of consulting with our experts regarding a possible appeal," said Fulham's acting manager Mark Collins.
"The FA decided a breach of the FA rules had taken place at the fixture and that the club's players had behaved in a disorderly manner on the pitch. A fine of £30,000 and a future misconduct warning has been issued to the club."
