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Ok look, forget what you know about the multiverse shit, this is how it goes;
Gen 1 = Gen 3 -> 3 year gap -> Gen 2 = Gen 4 -> ??? Year Gap -> Black & White -> 2 year gap -> B2/W2 = Gen 6
Now following this, all you need to understand is that the most recent version of a Gen game is the go-to one in terms of canon.
For example, the canon version of Gen 1 is Fr/Lg, and the canon version of Gen 4 is Platinum.
>But what about the alternate timelines that Zinnia said?
A nod to RSE and how they didn't have Mega Evolution in them. B/W already acknowledge version differences being alternate universes. It's no big deal. The timeline doesn't change.
>But what about Fairy Typing?
Same shit as Steel and Dark showing up in Gen 2, with typings (IE; Magnemite) being changed then. Just a simple retcon.
Hope this helps.