I just finished The Tyranny of King Washington And I have a theory about the events of the alternate reality
It's not the first time I've played it, much less finished it, however, I've always wondered why Connor's mother, Kaniehtí:io, and Kanen'tó:kon were still alive despite it happening after the main story. Especially, since it's a vision of "what would happen if George Washington succumbed to the power of the apple of Eden?", If that were to happen, how would Kaniehtí:io and Kanen'tó:kon be revived, or how did Haytham end up staying with Kaniehtí:io and die long before the events of the main story? So what I theorize is the following:
The Apple of Eden in question is number 3, and not much information is available about it, other than that it functions exactly like the others. So my theory is that it not only has the ability to calculate possible futures, but also alternate realities, and the purpose for which it "decided" to show that specific alternate reality instead of a possible future is because it was the worst version of the premise, achieving the goal of making Connor and Washington want to get rid of it. If it had been the other way around, it probably would have been less exaggerated and make Washington likely succumb to its power, Washington might even have been stopped by Connor or someone else long before reaching anything of that level, or not disturbing enough for Washington to need to speak with Connor urgently. Thus the apple of Eden "managed" to perform the probability/calculation that would cause it to be thrown into the sea, maybe even at those exact coordinates, and thus the Apple of Eden will be able to continue with its predestined purpose.
It was later recovered, although it's unknown by whom, as far as I understand, since it's the same Apple of Eden that Franklin D. Roosevelt in 1944, and JFK had. And the period from Connor to Roosevelt is unknown, as is its current whereabouts.
Part of my theory is that one of the Isu devised this plan; in the same way that Minerva or Juno did with Ezio or Desmond. It may even have been one of them.
There are many games and entries coming up, so I don't know if Ubisoft ever planned to do anything with Apple of Eden 3, and if so, whether they still plan to. But I like to think about this theory because it makes the alternate reality make a little more sense than just a shock effect of "oh, Connor's mother is alive, what the hell?" "Kanen'tó:kon is alive, omg" or something like that and end with "it was all a dream".