Waters on time (6)
I believe the answer is:
season
'time' is the definition.
(a season is a period of time)
'waters on' is the wordplay.
'waters' becomes 'seas' (sea is a kind of water).
'seas'+'on'='SEASON'
(Other definitions for season that I've seen before include "Add salt, pepper, spice etc" , "Add flavour at a certain time of year" , "eg Winter" , "spring, perhaps" , "Period of a year" .)