1. Awakening
When a series of mysterious attacks involving Cogito infected AutoReivs occur, Re-l is assigned to investigate, and encounters a humanoid monster. Later, she is attacked by two of these monsters at her home.
Ergo Proxy — Season 1
2. Confession
Re-l struggles to convince her peers of her encounters with the monsters, which she learns are called Proxy. She is removed from the investigation and finds that Iggy has had his memories of recent events erased. Meanwhile, Vincent finds himself on the run from a proxy and then the city’s authorities.
3. Mazecity
Romdo is no longer a safe haven for Vincent. He is trying to avoid capture by the authorities. As he flees he comes across the infected AutoReiv Pino. Pino then shows him the way to escape from Romdo to the outside world. Re-l struggles to contact Vincent and uncover the true nature of his involvement with the Proxy.
4. Futu-risk
Vincent and Pino are taken in by a small commune, the inhabitants of which make a living off the refuse dumped from the Dome. Meanwhile, Raul plans his move to locate and capture Vincent.
5. Tasogare
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.
6. Domecoming
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.
7. Re-L124C41+
Re-l recovers from her illness. Daedalus shows her the disturbing mechanisms responsible for the Dome’s continued survival. Vincent makes his way home, slowly losing his companions along the way, ending up alone with Pino. A group of infected AutoReivs is unleashed on Re-l, Iggy, and Daedalus. The episode ends with Daedalus filling out Re-l’s death certificate.
8. Shining Sign
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.
9. Angel’s Share
Vincent is introduced to a man named Hauer, and learns some truths about Halos and Proxies, discovering a horrific revelation.
10. Cytotropism
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.
11. Anamnesis
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).
12. Hideout
The group is confronted by a vagrant Proxy and its companion AutoReiv, and Re-l puts her new weapon to use.
13. Wrong Way Home
An infected Iggy becomes enraged and kidnaps Re-l, setting out to kill Vincent. Re-l is again confronted by the homeless AutoReiv.
14. Ophelia
While resting in a long-abandoned dome, strange occurrences take place and the trio’s lives are endangered.
15. Who Wants to be in Jeopardy!
Finding himself in a bizarre live game show, Vincent’s trivia knowledge is put to the test as he battles for his life.
16. Busy Doing Nothing
When winds die out, the trio are stranded aboard the Centzon and Re-l finds herself struggling to hold on to her sanity.
17. Terra Incognita
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.
18. Life After God
The trio reach the devastated Mosko, Vincent’s home city, and find that the truths lead back to Romdo.
19. Eternal Smile
Pino explores the mysterious Smile Land with the NaKaMa, and confronts the Creator of the city.
20. Goodbye Vincent
Vincent finds himself trapped within Re-l’s consciousness, and observes powerlessly as events unfold.
21. Shampoo Planet
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.
22. Bilbul
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.
23. Deus Ex Machina
Pieces are played and revelations uncovered as the final fight commences. Monad makes her return and tries to convince Vincent to join her.