You are absolutely right, I went in and manually fixed the megas for Metagross, Clefable, Raichu Y, Starmie, Dragonite, Meganium, Feraligatr, Skarmory, Froslass, Emboar, Excadrill, Scolipede, Scrafty, Eelektross, Chandelure, Chesnaught, Delphox, Greninja, Pyroar, Floette, Barbaracle, Dragalge...