 He then became a wartime chaplain with the RNVR (1944–1946) then served as a Royal Navy chaplain (1944–1969).He became Chaplain of the Fleet, with the title of Archdeacon of the Royal Navy, and a Honorary Chaplain to the Queen (QHC, all 1969–1972), also being made a Companion of the Bath (CB) in 1970 and a canon of Gibraltar Cathedral in 1971.Moving to the Diocese of Gibraltar, Weekes served Tangier as their chaplain from 1972 until he was appointed Dean of Gibraltar (1973–1978).