Meanwhile CA also said left-arm fast medium bowler Mitchell Starc was returning home with "some lower back soreness". (Agencies)
Australia coach and selector Darren Lehmann said dynamic batsman Warner had been left out of the one-dayers, which start with a lone ODI against Scotland in Edinburgh on Tuesday before a five-match series with England begins in Leeds on Friday, because of a lack of runs at this level.
Warner played in just one match during Australia's involvement in the Champions Trophy in England in June, scoring nine in a loss to England, but was suspended from the team after punching England's Joe Root in a Birmingham bar after the match.
He has only played three more ODIs this year, in January against Sri Lanka, where he scored 10, 60 and four.
Warner's omission came just a day after he top-scored for Australia with 53 in their 27-run defeat in the second Twenty20 international at Chester-le-Street on Saturday, where England's victory saw them level the two-match series at 1-1.
Starc endured a frustrating tour of England, playing in the first, third and fifth Tests of the five-match Ashes series while being dropped for the second and the fourth.
Australia always planned to reduce their limited overs squad from 18 to 15 following the two Twenty20s against England, something they've now achieved after Warner and Starc joined batsman Steven Smith (thigh injury) in leaving the tour party.
Australia squad for Scotland and England ODIs:
Michael Clarke (capt), George Bailey, Fawad Ahmed, Nathan Coulter-Nile, James Faulkner, Aaron Finch, Josh Hazlewood, Phil Hughes, Mitchell Johnson, Shaun Marsh, Glenn Maxwell, Clint McKay, Adam Voges, Matthew Wade (wkt), Shane Watson.
Meanwhile CA also said left-arm fast medium bowler Mitchell Starc was returning home with "some lower back soreness".