It was annoying to learn this but. 'Your' ship is not really a ship, it's just an elevator. You get in and press a button to get to the floor (planet) you need to get off at. You still need to run around that floor (planet) to get to the room (npc/area of desire). What's really boggling is why you aren't allowed to ride your speeder in the spaceport but you can ride it in 'your' ship.