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Linklater signed on the H.M.S. Bounty as a Quartermaster on 29 Aug 1787, the same day as his crewmate, William Elphinstone, the Master's Mate. The name, Elphinstone, is also of Orkney origins, and the two men appear to have been friendly, and likely had served together before, perhaps on their last ship.
During the voyage of the Launch, he sided with Fryer in his disputes with Bligh. He apparently was uncooperative with Bligh on a number of occasions in matters of small importance.
Bligh insisted that Linkletter was in good health when Bligh left Batavia, however within a fortnight, he and Elphinstone had both died.