A search commenced about 10pm on Tuesday with a co-ordinated effort between the Australian Maritime Safety Authority (AMSA) and Queensland Water Police.
It’s understood the alarm was raised about 6pm after the 31-year-old who was travelling between Getullia Island and Sue Island in Torres Strait failed to arrive at his destination.
He had set off on the journey about 9.30am before being hit by bad weather, with the conditions also hampering initial search efforts.
Read Related Also: Macron and Biden go head to head over U.S. economy ahead of state dinner
After the search was called off at night, the rescue mission resumed about 6.30am with the Cairns-based Challenger rescue aircraft, a rescue helicopter and police boat all taking part.
An upturned dinghy was located in the water first around 11.30am, AMSA said, and a short time later the missing man was discovered about 2km away, clinging to a piece of debris in the open waters.
The man was winched to safety and taken to Thursday Island to receive medical assistance.