Quote taken from the creator of pokegen."Generation 6 (X/Y and beyond)
As everyone should know by now, the new games are currently unable to be modified in terms of codes/save files. It seems that it'll be quite a while before this becomes possible, assuming anyone ever succeeds at solving the problem.
I'm no longer maintaining PokeGen as is, and certainly won't be updating it should modification of the games become possible. Bond697/Mat may choose to do this if that time comes. Let this be your definitive answer to the possibility of an update for X/Y.
-Edit by Bond697----
At some point in the future, gen 6 pkm files or something like that will probably be editable and able to be sent to games via Pokecheck or something. Given the encryption used for saves and ROMs, editing those is unlikely."
Source: http://projectpokemon.org/forums/showthread.php?32817-Generation-6-%28X-Y-and-beyond%29And to back up what you said douglas22888"The standard battle format style will be Flat Double Battles using Pokémon X and Y. Pokémon that are above Level 50 being auto-leveled down to 50 for the duration of battle. Players can only use Pokémon from the Central, Coastal or Mountain Kalos Pokédexes, except Xerneas, Yveltal, Zygarde and Mewtwo. Pokémon transferred from Generation V games by Pokémon Bank or Poké Transporter are banned but they can be used to breed new Pokémon in Pokémon X and Y. The moves Sky Drop and Dark Void are now permitted. Mega Evolution and Hidden Abilities are allowed."
Source: http://www.pokebeach.com/forums/thread-vgc-allows-only-kalos-native-pok%C3%A9mon-to-participate Told you nintendo wasn't cool with pokegen, looks like they are doing everything to stop it, funny that's exactly what I said earlier in the thread.
This post was edited by Effektivv on Feb 14 2014 02:20pm