Over with the commander at home (5)
I believe the answer is:
again
'over' is the definition.
(I've seen this before)
'with the commander at home' is the wordplay.
'with' means one lot of letters go next to another.
'the commander' becomes 'aga' (I've seen this before).
'at home' becomes 'in' ('I'm in' can mean 'I'm at home').
'aga' put next to 'in' is 'AGAIN'.
(Other definitions for again that I've seen before include "return" , "Ocne more" , "Repeatedly" , "Not for the first time" , "Furthermore" .)