Has the focus of the story now shifted away from the Apple Family three for good? Every once in a while in part 1 we got these very telling moments where AJ has some bought of self-identity doubts hearkening back to the beginning, which were so subtly well done, but the story seems to have taken off in something of a new direction.

I’m not totally sure what you’re basing the idea of the story moving in a “new direction” after Part I on, since Part I is the only part you’ve seen yet. The key points of the story have been set since the beginning, so there’s not much in the way of new directions or dropped plots going on.

I also don’t know who you mean by the “Apple Family three” since there are four main Apple Family characters on the show and only two have appeared in Three Apples- one of whom was absent for most of Part I and is back in the narrative now.

in short: no I don’t think so