"..the opponent's players received only one yellow card during the game, while the Senegalese referee showed three yellow cards to Al Ahly players," read part of the statement.
"The referee gave our defender Badr Benoun a yellow card in the 20th minute of the game for wasting time, which is not logical for a home team player to waste time at the beginning of the match."
The statement continued: "Moreover, the club stressed in its complaint that referees commit several crucial mistakes that affect the outcome of the matches during the knockout stages.
"These mistakes waste the efforts of the entire working system and squander millions of dollars that clubs spend on signing new players and coaching staff to reinforce the squad, besides the difficulties which the teams face during travelling to play their away games.
"The club has also affirmed its full confidence in the fairness of the CAF and their eagerness to preserve all the rights of the competing teams, which is in the interest of the competition."
Botola giants Raja and Wydad Casablanca have also joined Ahly in submitting complaints to CAF over the officiating against Orlando Pirates and MC Alger respectively.