Referee Nestor Pitana was alerted to a possible handball and after checking the off-field screen he decided Ivan Perisic had handled the ball in trying to clear a French set-piece.
The match at the Luzhniki Stadium had already seen the first own goal in a World Cup final when the ball flicked off Croatia striker Mario Manduzkic and past his own keeper to put France 1-0 up after 18 minutes.
FIFA has declared the use of VAR at the World Cup in Russia a success.
(Reporting by Mark Gleeson; Editing by Ed Osmond)
