The 28 goats were used in trials for the Ministry of Defence (MoD) on the effect of pressure on submarine crews during emergency escapes.
The tests were designed to help crews judge whether to abandon a stricken vessel or wait for rescue.
The animals are being sent to the Buttercups Sanctuary for Goats in Maidstone, Kent, before being re-homed.
The MoD announced in February that it would end the testing following controversy about the use of goats in such experiments.
Defence research group QinetiQ carried out the tests to assess the risk of Navy personnel getting "the bends". The "bends" - the effect of nitrogen bubbles in the bloodstream - is the sickness caused when divers rise to the surface too quickly.
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