It's okay. I'll have Ike as my wingman to switch into Fairy attacks, and I never leave home without my Scizor (whose Bullet Punch will tear through Fairies like me at a dessert buffet).
And hey, maybe they'll expand Scrafty's moveset to help him deal with Fairies more effectively! Maybe he'll expand his arsenal of headbutt attacks with Iron Head!
Damn straight, nothing will stop the Scraftytrain.