The charge relates to how Arsenal reacted to referee Graham Scott after Henrikh Mkhitaryan was adjudged to have brought down Demarai Gray in the penalty area.
At the time, scoreline was 1-1 after Pierre-Emerick Aubameyang had brought the 10-man Gunners back following Kelechi Iheanacho’s opener and Konstantinos Mavropanos’ 15th-minute red card.
England striker Jamie Vardy converted from the spot to break a 1-1 tie in the 76th minute and provide Leicester with a lead they would not relinquish.
Riyad Mahrez’s late goal sealed the points for the Foxes, who can finish as high as eighth in the league depending on results in the final day of the season.
“Arsenal have been charged with failing to ensure their players conducted themselves in an orderly fashion,” an FA statement read.