A thousand years after the destruction of Earth by gigantic aliens called Gauna, mankind is living on massive spaceships. One of these space ships is Sidonia, which is protected by large pilot controlled exosuits called Gardes.
In the distant future, humans are declared "illegal residents" and hunted to near extinction by murderous robots. One day, a group of human scavengers come across a strange man named Killy, who may be the key to humanity's survival.
In the post-apocalyptic future, the earth is buried in an enormous mega-structure created by machines. The last hope for mankind is information on a data disc from an engineer called "Cibo."