The winning goals were scored by Jonathan Toro, in the 37th minute, and Julinho, in the 71st.
In the group stage, now concluded, the national champions scored six goals and conceded none, leaving them exempt from facing the winners of the remaining groups in the quarter-finals.
Espérance de Tunis, also from Tunisia, qualified second, with 11 points, while Al-Hilal Ondurman, from Sudan, with five, and Étoile, with four, were eliminated from the competition.