According to the Japanese Pokémon Global Link website[1] as reported by Serebii.net[2], thousands of people (5,954 to be precise) have been hit with bans from Online Play (Game Sync, Battle Competitions, Rating Battles, Global Missions).
Banned users will see error code 090-0212.[1,2]
The Pokémon Company has announced that they will continue their pursuit against people with edited save data.[1,2]
We urgently recommend not going online until we have more information on how these b