Re-l braves the outside world in order to bring Vincent back to Romdo. While there, Raul commences his plan to capture Vincent by attacking the Commune with patrol drones. Re-l's environmental suit is damaged and Vincent is injured in the attack. Re-l suspicions are confirmed that there is a link between Vincent and the Proxies.

Re-l's life becomes endangered when she falls ill after exposure to the harsh environment. Hoody hatches a cunning plan to trick Raul and return to Romdo. Quinn leads a group on an escape from the Commune using the Rabbit.

Vincent and Pino stumbles onto war-torn Halos, where they are caught in a war between the dome's human inhabitants and its autonomous AutoReivs.

Vincent is introduced to a man named Hauer, and learns some truths about Halos and Proxies, discovering a horrific revelation.

Disturbed by recent events, Raul questions the future of Romdo. Meanwhile, Re-l and Iggy explore a strange antiquated dome inhabited only by primitive AutoReivs.

Vincent finds a strange book store and an even stranger old man, where he discovers more about his true nature. Re-l and Iggy catch up on the Centzon (the Rabbit, the flying ship that Vincent travels by).

The group is confronted by a vagrant Proxy and its companion AutoReiv, and Re-l puts her new weapon to use.

An infected Iggy becomes enraged and kidnaps Re-l, setting out to kill Vincent. Re-l is again confronted by the homeless AutoReiv.

While resting in a long-abandoned dome, strange occurrences take place and the trio's lives are endangered.

Finding himself in a bizarre live game show, Vincent's trivia knowledge is put to the test as he battles for his life.

When winds die out, the trio are stranded aboard the Centzon and Re-l finds herself struggling to hold on to her sanity.

Romdo is on high alert as they search for the fugitive Raul, who plans to activate a deadly weapon. Meanwhile, the trio discover strange humanoids living inside a toxic cave system.

The trio reach the devastated Mosko, Vincent's home city, and find that the truths lead back to Romdo.

Pino explores the mysterious Smile Land with the NaKaMa, and confronts the Creator of the city.

Vincent finds himself trapped within Re-l's consciousness, and observes powerlessly as events unfold.

A Cogito outbreak spreads through Romdo and the city falls into chaos. Vincent incites the people to revolt, pushing them to hunt down and kill all AutoReivs.

As the city continues to crumble, Vincent and Re-l encounter Proxy One. Raul is overcome with regret and despair, and sets out to find Pino.