Stanton's blast off Jim Henderson lifted the Miami Marlins to a 5-4 victory over the Brewers in south Florida.
Milwaukee (26-38) had battled back from an early 3-0 deficit to take a 4-3 lead in the seventh, when Scooter Gennett brought home Yuniesky Betancourt with a squeeze bunt.
Wily Peralta started for Milwaukee, going six innings. He allowed three runs in the second before settling down.
Henderson, who had been the Brewers closer before a stint on the disabled list, came on in a setup role in the 8th, allowing a hit and striking out a pair before Stanton took the first pitch he saw over the wall in left-center.
The Brewers and Marlins will conclude their three-game series on Wednesday night.
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