Revealing mistake: When the Enterprise is leaving space dock, look at the right (starboard) side of the ship. You can see the shape of the mounting arm the model was mounted on, even though it was blacked out to look like space, and it also blocked out the bottom of the dock. The footage was reused from Star Trek: The Motion Picture.
Revealing mistake: When Chekhov and Terrell see the Ceti Eels moving around in the tank for the first time, it's obvious that it's not sand in the tank. As the creatures move underneath, all the 'grains' move in unison, and not a single grain of sand is disturbed nor do they tumble over one another.