A Captain's yacht was a large auxillary craft carried in a purpose built docking facility, normally on the underside of a ship's saucer.
During the Dominion a porposal was put forth to replace several of them with remotely pilot warheads. While the idea had merit, refits were unfeasible at the time.
There were other types, like the Captain's skiff on the Luna class and the Constitution's capsule craft.
Classes[]
Deneva
Freedom
Istanbul
Sequoia
Sovereign