Well it really depens which context you give it I guess.
The idea itself is okay in my eyes and if explained well enough no problem on my side.
That might add to the problem, but I would still argue to not make her super intelligent and while not baby, maybe at least a little child like in mind.
That should not create that you and the child kinda content, just....I guess if she just hatched, everything should be new to her or most things. Sorry if that somehow came out weird.
Maybe every scene gives her a jump in her intelligent, quickly absorbing information or something like that.
Long story short, depending on what you are planning, for me it's mostly about how it's written or explained, I remember some really .....weird incest based scenes in fanfictions that suprised me when they appeared.
So far I would trust you with it.
I guess with what was that wish pokemon named again? If they are a bit to human looking it doesn't look like a pokemon to me anymore, I guess that was my problem last time if my memory is right.