According to wikipedia
As of now, season 2 is in production. 26 new episodes will be aired and it will focus on the Age of Apocalypse storyline of the comics. At the end of Season 1, we see Apocalypse entering a platform with Mister Sinister and Cyclops beside him. During Comic Con 2009, Images of Season 2 were shown. They were of Colossus, Magik, Deadpool, and Havok. It was announced that these characters will appear in Season 2. Colossus is getting a reintroductory storyline and will be a regular character in season 2.