Messi appeared agitated as the pair went back and forth, before the Argentine briefly rested his hand on Ballouchy's neck, who pulled away from the superstar.
It comes after a referee in charge of Inter Miami's Concacaf Champions League opener was disciplined after asking for Messi's shirt after their game against Sporting KC.
The Inter Miami duo were hit with an undisclosed fine for their actions during a 2-2 draw with New York City FC in Saturday's season opener.
The eight-time Ballon d'Or winner began walking away, before turning around to hold onto the back of Ballouchy's neck for a second time.
Messi has been punished for grabbing the neck of a New York City assistant coach during a post-match war of words.
