Considering that you had to re-write the intro, i guess you understimated the power of money, there's not much i have to say, even if the Alice conversation is left aside
my only opinion right now being that it's the first impression, wonderland seems to be completely binary on it's conclusion, either Alice loves or hates you but that result gets overwritten by helping Alice or siding with the queen, there's the queen's varying height as well, sometimes being a head smaller that the MC, others being smaller that even current Alice, maybe i'm blowing up smoke on what could be fixed on the second or third visit
since that's also the KH formula
About Tifa and Aerith.. i just accepted that westerns can't anime, at this point all i can say is, follow your initial idea, make something, anything, then fine-tune it or more like re-work it from the ground-up after you're done, retrospective can sometimes do wonders.
I've seen some say that the amount of work to include every world and at least every female character is too much, but i disagree considering the amount of fan-art from where any artist can get reference of the anatomy of those characters.
The real issue is not making the Breeding Season mistake of allowing an artist to keep the rights of their commissions effectivelly taking almost if not every asset they made from the game.
Current Alice doesn't even fit in wonderland which it hasn't been an issue on any interpretation so far and Mulan kind of doesn't count since she mostly resembles her original version, the same with Tifa and Aerith, by saying that they're on a similar ground means that you're selective on who should resemble their original counterpart and who shouldn't
And even then old Tifa resembled more her FF7 counterpart instead of the current more generic looking one
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The queen have a sex slave and can enslave Alice on the Queen-route to have a threesome with you
Tweedle Dee/Dum give the 5th/last evidence on the last days on the Bizzarro room, you can work multiple days for the queen to get another evidence in her room and getting involved with the mad hatter and the queen lead you to the bush where the catterpillar is for the 4th evidence if it's stilll not enough time by Alice failing to increase her stats, you can always rewind time through the save edit site, luckly going back in time doesn't break the game
If i have to sumarize the struggle that this game have and will keep having is artist working on this game will want to force their art-style regardless of quality which will remove the KH identity in favor of a generic low-budged Nutaku original game.
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That's why i'd rather have the basic structure of the game done so anyone could just do minor "improvements" through mods.