The France superstar had an eighth-minute spot-kick saved by Montpellier’s Benjamin Lecomte and then remarkably saw his second attempt turned onto the post by the goalkeeper after the referee ordered a retake.
Mbappe then limped off with what looked like a hamstring injury midway through the first half, raising the alarm for PSG with the first leg of their Champions League last-16 tie against Bayern Munich now less than two weeks away.
After winning just one of their last four league games, this awkward trip for PSG saw them also lose Sergio Ramos to injury and have two goals disallowed before Fabian Ruiz put them ahead 10 minutes into the second half.
Ruiz then set up Messi to make it 2-0 with a deft finish and 16-year-old midfielder Warren Zaire-Emery made sure of the win in stoppage time after Arnaud Nordin — a friend of Mbappe’s from their time together at France’s national training academy — had pulled one back.
PSG, who were without the rested Neymar, extended their lead at the top of the table from three to five points after Lens lost 1-0 at home to Nice.
Gaetan Laborde scored the only goal as Lens dropped points at home for the first time this season after winning all 10 previous matches there.
Marseille climbed above Lens into second place thanks to a 2-0 victory at Nantes earlier, secured by an own goal from Joao Victor and then a late strike by Azzedine Ounahi, the Moroccan World Cup star making his debut after signing in the January window.
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