Concerns were raised over a girl who was in the water at the Port of Ramsgate just after 05:00 BST on 1 May.
Becky Morgan's remains were recovered from the water at Broadstairs shortly after 07:45.
Michael Bowditch, 21 of Prestedge Avenue, Ramsgate, is due to appear at Medway Magistrates' Court via video link later.
A man has been charged with murder after the body of a 17-year-old woman was pulled from the sea off Kent.