Deserted by Jack and done in (9)
I believe the answer is:
abandoned
'deserted' is the definition.
('abandon' can be a synonym of 'desert')
'jack and done in' is the wordplay.
'jack' becomes 'ab' (both can mean a sailor).
'in' means one lot of letters goes inside another.
'ab'+'and'='aband'
'aband' going around 'done' is 'ABANDONED'.
'by' is the link.
(Other definitions for abandoned that I've seen before include "Forsook, left behind" , "Quit" , "Left in the lurch, forsaken" , "Deserted; uninhibited" , "Given up?" .)