The version of Star Trek TOG on Netflix has weird scene transitions that look very CG to me. When were these added and why?..
A remastered version of ST: TOS came out a while ago, that may be it.
In terms of them being, as you put it, "Lucas’ed" meaning not just updating the special effects but going too far, adding F/X that glaringly, obviously stand-out or even change major scenes entirely (Jaba’s appearance in the original Star Wars, or worse making Greedo shoot first), then the general consensus answer is no, they didn’t do that. None of the new effects seem gratuitous like Lucas’. In fact CBS Digital was praised for showing very good restraint in their use of them.
I understand and agree with the whole reason they did it at all. It wasn’t to compete with Star Wars or anything like that, it was simply because the old optically printed effects scenes, while completely cutting edge for TV (and even film) at the time, would simply not hold up in a high definition (i.e. Blu-ray) release. I’ve watched most of the episodes in their remastered form and I can’t think of anything I found too jarringly different. In fact, there were a few things I’m surprised they* didn’t* change…
You don’t have to worry about Star Trek being “Lucas’ed”.
Kirk always shoots first.
Only when forced to defend himself. Otherwise, he comes in peace. 
or in aliens
Shortly before his passing, Bob Justman, one of the most influential members of the TOS crew (he was both Associate and Co- Producer), said in an interview that he heartily approved of the CGI effects, and that they were the type Roddenberry would have wanted if they had been available and affordable in the '60s.
ST and Anderson Opticals had to invent nearly all of the effects, on the fly or with very little lead time. They were pretty amazing on the small, fuzzy screen, but I can say as an old-guard Trekkie that I am completely happy with the redone shots. I’ve seen about ten of the remastered shows and can’t think of a single example of an out of place, overdone or “Lucas’ed” shot.
Have the modernized the communicators? Those looked bad even in the 60’s.
There’d be no point to “modernizing” them, since we have no idea as to what technology they employ. Who’s to say that 200 years from now a device that can do what they do won’t look big and clunky to us?
Much the same thing can be said for many things on board the Enterprise. Maybe future technology (well advanced beyond our capabilities) will actually look that way. Who knows?
We come in peace, shoot to kill, shoot to kill, shoot to kill;
We come in peace, shoot to kill, shoot to kill, men.
I’ve said it before and I’ll say it again: I wish they had gotten rid the Gorn’s compound (insectoid) eyes. They-just-look-silly, überfake!
They made him blink, they could have given him reptilian eyes, but nooooooooooooo! :mad:
The Gorn head and hands came up on a Hollywood auction a few years ago and in the pictures, they looked better, somehow, than they did on the screen. But yeah, glittery gold eyes… must have run out the costume budget before that show, which is one of the sillier and more contrived eps anyway.
Oh No You Did’nt! Don’t you be dissin’ TOS Gorns! Don’t even think about it! Gorns rule old school eyes and all!
Do all the Klingons have ribbed foreheads?
The whole forehead thing could have been easily explained by the Klingon Empire being made up of different races and species, as was assumed when they used inconsistent makeup in TOS.
We do not discuss it with outsiders.
There was one I didn’t particularly care for: the surface of Vulcan as presented in “Amok Time.” The whole weird geological formation leading up to the wedding arena was just too much and contributed nothing to the story. It was just superfluous "Oooooh, look how clever we are!"CGI, something that annoys me no end.
One question I have: were the deep color washes on the walls (which look like lighting) in the original, or added in the remastered versions? My memories of the show are from the black and white era and I don’t remember seeing the strong colors on the walls in later but pre remastered viewings.
Those were created using colored gels in front of the lamps used to light the set. Jerry Finnerman, the TOS Director of Photography, was responsible for creating innovative lighting effects using said gels and filters in front of the camera lenses. In addition to being quite striking, they often eliminated the need to repaint sets that were reused from week to week.
Prior to remastering, the color in the original films had become very washed-out, so it’s likely the effect wouldn’t have been as noticeable as in earlier years.