The yuri tag is there for future development, none of it is implemented yet and even then it’s only ever in the context of a three-(or more)-some.
As of now, all it’s done is cause more confusion and shitposting, not less.
I also agree that you shouldn't prune tags as long as they're true, even if we're only just starting to see the beginning of it.
On one hand, with the harem + yuri tags: At the end of the day you do have
two of the love interests in love with each other (or at least one in love with the other so far), and that might be a legit deal breaker to some people, which is perfectly fair. It just means that this is not the game for them, and it's right that they should be able to identify that up front (it's also right for them to just leave the thread without making a "I was going to play but..." comment).
On the other with the Unity hate: People are going to have dumb hangups about things and there's nothing you can really do about that. Honestly I'm amazing you've still been willing to reply to comments like that, personally I would have given up and just ignored them a while ago.
I don't think the two types of comments should be conflated, there's a difference between a rationalized dislike of certain story elements, and an irrational hate of a game engine.