The thing that always bugged me is why nobody ever promptly told Scotty that "evil Kirk" blasted a whole in his power conduit, and he needed to discover this on his own, apparently?
I actually laugh a little bit every time I see this scene actually. Evil-Kirk blows a hole in the transporter ionizer, then a little while later, we have Scotty apparently discovering the hole and explaining it to the Captain, and the Captain not even offering, "oh yeah, Evil Kirk blew it up."
"Hey Spock, we won't tell Scotty that your nerve pinch caused Evil Kirk's muscle to spasm and fire the phaser into the transporter. Maybe he won't notice."