New York made the move before a series opener against Toronto. The Yankees also activated third baseman Gio Urshela, who has recovered from a bone spur in his right elbow, and right-hander Jonathan Loaisiga, who was sidelined with a medical condition the team did not specify.
Stanton hit cleanup against Toronto, ending Clint Frazier's 16 straight games as New York's No. 4 hitter, and Urshela hit fifth.
Right fielder Aaron Judge, limited to one game since Aug. 11 because of a strained right calf, is expected to be activated later this week.
Stanton hit .293 with three homers and seven RBIs in 14 games before he got hurt.