All of those games were accounted for in some wayIt is likely that UltraSUN / MOON will have the same effects as ORAS, Emerald, Platinum, etc. Not very relevant.
Emerald- Frontier Arc
FRLG- The gang going to Kanto, May getting two of the Gen one starters, and Ash using his OG team to battle the Brains.
So all and all the games will be taken into account someway.