I've seen it several times now that when a ship warps it looks fine, but a second before the load screen appears the ship is back at its original position. This is a minor thing but it obviously doesn't work as intended.
Minor typo also: when I talk to the Ferengi arms dealer on the Starbase a tutorial pops up that states items are "usuaully" for a price. This should be "usually".
EDIT: Some of the tooltips are too big. The top half is off the screen, leaving for example only the ground portion of a list of skills for inspection.