After Safari's return to Basel, he featured in their 2013-14 Champions League campaign. At the end of the 2013–14 Super League season Safari won his third league championship with Basel. They also reached the final of the 2013–14 Swiss Cup, but were beaten 2–0 by Zürich after extra time. During the 2013–14 Champions League season Basel reached the group stage and finished the group in third position. Thus they qualified for Europa League knockout phase and here they advanced as far as the quarter-finals.