Root had helped spark the recovery with an unbeaten 113 in an 86-run win in the second ODI at Lord's on Saturday, after being dropped from the final match of the preceding 2-1 Twenty20 series loss to India. Both the teams will be locking their horns today in the third match of the One Day Internationals.
England, who will be bidding to win the World Cup for the first time when they stage next year's edition, had said they would treat Tuesday's match as a dress rehearsal for a winner-takes-all game at the showpiece tournament.
Root's Yorkshire colleagues David Willey and Adil Rashid took three wickets apiece as the tourists were restricted to 256 for eight.
England's big three bowlers of Jimmy Anderson, Stuart Broad and Chris Woakes are all returning towards full fitness after injuries and with Root declaring his hand on Stokes the only real first Test selection issue for England is in the spin department. It happens to be India's first bilateral series defeat under Virat Kohli's captaincy. The struggle continued to Leeds as he managed only 42 runs during his 66-ball stay in the crease on Tuesday.
Dinesh Karthik, preferred to KL Rahul for this match, then made 21 before he was bowled between bat and pad by Rashid.More news: ‘Rip off’: fans angry over new £190 Manchester United kit
Kohli pressed on, however, completing a 55-ball fifty including six fours before Rashid struck twice in quick succession as India´s 156 for three was transformed into 158 for five.
A stunned Kohli was left staring the pitch in disbelief before beginning a slow walk back into the pavilion.
Yorkshire´s Jonny Bairstow was even more fluent, hitting 30 off 13 balls, including seven fours, only to chip Thakur to Raina at midwicket.
MS Dhoni's act of taking the ball from umpires led many to believe he was retiring.
Root (100 not out) and Morgan (88 not out) shared an unbroken third-wicket stand of 186 as England won with 33 balls to spare.