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The eight-times Ballon d'Or winner was then seen sobbing on the sidelines, with an ice pack on his ankle.
Messi repeated the reason for his absence from the highly-anticipated game against a local League XI in Hong Kong on February 4.
The match in Hong Kong drew 40,000 fans, with some spectators paying up to nearly HK$5,000 ($640) per ticket.
Argentina forward Messi, nursing a hamstring problem, started on the bench and Portugal's Ronaldo missed out completely due to a muscle injury, disappointing fans hoping to see the world's two most famous footballers in opposition.
Malcom came up with the decisive goal to win the match in the 88th.
The party also included some of Messi’s Inter Miami teammates.
The 36-year-old is now three Ballons d'Or clear of rival Cristiano Ronaldo, who won the last of his five trophies in 2017.
Messi had played just 37 minutes for his club since September 3, having returned with an injury from international duty with Argentina last month.
Messi extended his winning streak since joining the MLS side to seven games.
Inter Miami crushed Philadelphia Union 4-1 to set up a title clash with Nashville SC.