I don't know to what degree Disney animators took into account film stock once they started using CAPS.
TLM was made in a fairly bleak period for Disney's animation department. A lot of the really experienced animators had left. It doesn't strike me that they went through all the same things as they did with their Technicolor collaboration days with answer prints and all.
Besides, by the 90's film stock was a much different (better) beast than in Disney's early days.
Considering that fully CAPS produced films look fairly identical in nearly all their DVD and BD releases, I don't think ANY adjustment is being made (or is needed) when Disney digitally transfer those films.
Several DVDs that did have an intermediate film stock before DVD don't look significantly different (color-wise) from the later all digital transfers from CAPS.
Either they have been REALLY good at matching the film prints or the CAPS could be as accurate a reference as plain cells at this point. Rightly or wrongly.
BUT the CAPS segments are at least stable and already digitized. I'd rather they went that way than adjusting colors and brightness because they'd be too dark while you're wearing 3D glasses.
The Platinum Edition's several mini flaws being corrected at least shows that people familiar with the film were at least involved in the restoration.
At this point, it's probably just a bunch new college grads hacking away with Photoshop or something making the adjustments with no real knowledge of the film.
Seriously, would you leave real obvious flaws (hand out of place, shirts changing colors, etc.) in a new restoration from a new print, but still take the time to paint a KNEE out?!
Fidelity to the original film was not their agenda. 3D eye candy for a new generation well timed to tie into Once Upon a Time's Ariel appearance, the Magic Kingdom's Little Mermaid ride and whatever else TLM branded stuff IS the goal.
They're probably using some annoying buzzy word like Synergy.