According to this rumour: http://dualpixels.com/2016/03/03/rumor-next-cod-dubbed-bloodline-activision-entangled-in-nintendo-nx/ Activision is interested in bringing Beyond Destiny to the NX due to the fact that: the new mainline Pokémon games will not only guarantee a big NX user base but a new type of audience they can bring into the franchise.
The only upcoming mainline Pokemon games I can think of at the moment are Pokemon Sun/Moon. Considering they have been announced for the 3DS, I can't see why Activision would think they could guarantee a big userbase to the NX. Even if the NX were BC with the 3DS, most sales would go to those that have a 3DS already, and not necessarily a NX sale. Pokemon Black/White didn't make the 3DS fly off the shelves, they just sold well on the DS. And even if they are not talking about the 7th gen, Nintendo does not sepparate their gens, the NX would have to wait at least three years to get a proper 8th generation.
So what could make Activision think the NX will have a mainline Pokemon by the time Beyond Destiny is released? Do they think the NX will get a version of S/M? Or do they think Nintendo will move it to the NX altogether?
In the case that happens, in the case that Nintendo moves Pokemon S/M to the NX, what do you think it will happen?