Other mistake: The action is shifting back and forth from the bridge where the alien ship is attacking and sickbay where McCoy is operating on Sarek. In two separate takes when the scene shifts to sickbay McCoy is standing at the operating table. I noticed a wisp of smoke rising from McCoy's right side (left side of screen). It appears to be from a cigarette in an ash tray below camera level either beside McCoy or near the head of Spock's bed.
Suggested correction: This was an intended physical effect to simulate the cryogenic surgery that McCoy was performing on Sarek.
The Alternative Factor - S1-E28
Other mistake: When Spock calls Kirk to the bridge after he discovers the Lazarus energy source, he and Lazarus head to the bridge. There is a shot of McCoy standing in the corridor, and one of the red alert panels is burned out while the other is still flashing.
Other mistake: In the Briefing Room, while Kirk is feeling the effects of the disease, Spock tells Scotty that he will call the restart formula in from the bridge. But just a moment later, Kirk enters the Bridge, and Spock is in the Engine Room working on the settings and formula with Scotty.
Other mistake: Kirk orders the helm to get phasers ready to fire at the Romulan vessel. When the helm responds, it's not the phaser banks that fire, but photon torpedoes. (00:32:58)
Space Seed - S1-E23
Other mistake: Spock calls for McGivers and Scotty to the transporter room. In the Transporter Room, Scotty is at the controls, then after he went to the Transporter pad, they used a stock shot of his hands working the controls.
Let That Be Your Last Battlefield - S3-E15
Other mistake: At the end of the episode, as Lokai is running through the ship, his hands are empty. However, in one closeup shot he is holding onto a rope with his left hand. The rope is gone in the following shot. Presumably this rope was used to tether him to the camera as he ran so that he could maintain distance from the camera.
Other mistake: As Kirk and party duel against the Klingons, there's a heavy-looking round conduit on the wall right before the turbolift door that gets knocked down so it stands as a big flower pot. A moment later, it's back in position.
The Immunity Syndrome - S2-E18
Other mistake: When the probe emits a loud high-pitched tone, everyone is in pain, with the exception of Mr. Spock, who is supposed to have super sensitive hearing.
Suggested correction: Spock has also been shown to be able to control his own pain.
Other mistake: After Scotty makes his remarks to Spock, he raises his phaser. The sparks start up before Scotty levels his phaser.
Requiem for Methuselah - S3-E19
Other mistake: If the ship had not been in visual communication, there's no way Kirk could have seen the Bridge or the crew in suspension.
This Side of Paradise - S1-E25
Other mistake: After Spock is hit with the spores, he goes down on all fours in pain. As he writhes around, the skin tone of his ears is vastly different to his other makeup.
The Enterprise Incident - S3-E2
Other mistake: As the Romulan commander goes to answer the intercom, the switch she touches to open the link is already on, probably left that way from a previous take.
Other mistake: In the cells, the particular strip of metal Kirk pulls loose has rivets that are noticeably different than the rest, making it easier to pull loose.
The Return of the Archons - S1-E22
Other mistake: On the bridge, as the camera looks at the view screen, there is a flashing blue light reflecting on the console in front of Sulu, but there is no light other than scanner under the viewer flashing and it's too far away to project light that far, and it's amber colored.
Who Mourns for Adonais? - S2-E2
Other mistake: The bushes behind the temple shimmer in time with the temple when the ship is firing on it, but they aren't connected to it.
Other mistake: As Kirk nears the portal, the edge shimmers just before he gets to it. As he goes through it, his actions are greatly slowed rather than natural.
Other mistake: The red alert light at the entrance to the chapel blinks a few times and stops, even though the rest are still flashing. Also, the last thing Kirk says is "All decks, condition red", which is unnecessary, since the red alert has already begun sounding.
Other mistake: When the transporter comes on to beam up Pike, the blonde ensign goes to face the transporter. As she does, she glances down at the floor to find her mark, and stands on it, looking into the chamber.
Other mistake: Early on, there is a shot of the control room. There is a read out that is counting down from "5 04 15", meaning that the launch would be in just over five hours, not less than one minute.