In your toon Henry! AU, maybe in one bad ending Joey just decides to destroy Henry and use his ink to make a "better" Henry. He makes this Henry in the image of young artist Henry before he was drafted and when it's all said and done there is a new young Henry toon, the only problem is he doesn't know anything the original Henry does. He's for intents and purposes a newly created toon who happens to have the image and mannerisms of the late Henry Ross.
(cont.) It could go 2 ways, Joey is livid. This “Henry” is not what he wanted, he’s a scalable first attempt, Joey doesn’t deal well with failures and probably scares the shit out of 2.0 Henry and Hen flees. Or Joey keeps it together and doesn’t flip his shit at 2.0 Henry the moment he realizes Henry doesnt remember Henry 1.0’s memories and starts manipulating New Henry, who probably feels really uncertain about his creator’s plans but is unknowing of the manipulation until he is made aware.
Oh, gosh. Yeah, whatever happens here, it would NOT end well.
That being said, as I stated before, if Joey created this “new” Henry with his perception of Henry before things went south, then for all intents and purposes, that is who this new Henry would be… albeit, a cartoon version of him. He would not, of course, know anything about the war, or of leaving the studio. But the toons would instantly recognize something was different about him – wrong, even. Even Bendy would take notice.
Joey might be able to convince Bendy that all he did was to talk to Henry and convince him to change his mind, as well as revise his “design” so that Henry would be more youthful, but even this workaround wouldn’t fly when compared to the new Henry’s memory. And even if Joey DID create this Henry with that in mind, Alice and Boris wouldn’t fall for it, not after everything. Who knows where it’d go from there, but it wouldn’t be good.