The hosts were bowled out for 80 before England won by four wickets.
Stokes is in a race against time to be fit for the five Tests, which start on January 25.
England lost six wickets but this was still a shellacking. India were routed for 80 as the visitors secured a Twenty20 international series win, chasing down their target at the Wankhede Stadium in Mumbai inside 12 overs. All six members of Heather Knight’s bowling attack were joyous before Alice Capsey top-scored in the chase with a 21-ball 25 as the tourists went 2–0 up with a game still in the bag.