The NEF was reorganized in February 1942 as the Mid-Ocean Escort Force (MOEF). On 9 September 1942, Murray was appointed to Commanding Officer Atlantic Coast, with his Headquarters in Halifax, and effective command over 322 armed ships. As a direct result of the Atlantic Convoy Conference of 1–12 March 1943, where it was agreed that the US Navy would concentrate on the South Atlantic leaving Canada and the UK to cover the North Atlantic, on 1 April 1943 Murray was made Commander-in-Chief Canadian Northwest Atlantic. Still headquartered in Halifax, thereafter he commanded all Allied air and naval forces involved in convoy protection between Canada and the coast of Ireland until the end of the war with Germany in 1945.