He is due to rejoin the squad in mid-February for a one-day series then two Tests against New Zealand.
The allrounder will be available to play on February 18 at the earliest against New Zealand in Hamilton in a Twenty20 global tri-series co-hosted by Australia.
"I came into this tour wanting to play everything", Root, the 27-year-old Yorkshire batsman, said in a statement.
The all-rounder was charged with affray earlier this month, with the England and Wales Cricket Board subsequently deciding to call him up for the forthcoming Twenty20s in. "I really believe playing a block of Twenty20 cricket with that scrutiny, being under pressure for long periods of time against the world's players in that format would be a great opportunity to develop and learn my white-ball game".
"You look at the amount of cricket we have got coming up and it was a long, hard decision that me and (head coach) Trevor Bayliss had to come to". It's going to be really important to make sure that I'm available for all of that.
Joe Root has decided to withdraw from England’s forthcoming Twenty20 series
Stokes may have chose to join the squad for training in New Zealand ahead of his planned comeback but has instead opted to attend Bristol Magistrates' Court.
Stokes has not played for his country since September following an incident outside a Bristol nightclub, missing the 4-0 Ashes defeat.
He was last week included in the squad to play the triangular T20.
England will face the Black Caps in Wellington on February 13 - but England's all-rounder is already booked up for that date, which he confirmed Tuesday morning via Twitter.
Root, who has been on tour in Australia for three months, will return home at the end of January following the final one-dayer in Perth and miss the T20 series against Australia and New Zealand.
Modi Leads Major Indian Presence At World Economic Forum In Davos
Modi's upcoming trip will be the first-ever visit by an Indian prime minister to Palestine. India's envoy to Canada, Vikas Swarup also confirmed the development.