He was branded a failure by his captors and placed in isolation room 5 in the medical ward. Where others would succumb to excruciating pain and become insane, he retained enough of his intelligence to be capable of speech immediately after the process completed. However, unlike other victims of the virus, Fawkes managed to survive the mutation process with his mind intact. His origin is the same as any other Vault 87 super mutant: He was taken by the mutants and exposed to the modified FEV used in the Vault's Evolutionary Experimentation Program.
However, these glimpses are all that remains of his past, and the inability to recall his past identity torments him to no end. He is one of the original dwellers of the Vault, and can still remember glimpses of his past, of the Vault in its prime, with scientists and regular dwellers walking through the halls. Where the majority of mutants are aggressive, barely intelligent idiots, he is an educated, soft-spoken person that keeps his violent impulses in check. Imprisoned in Vault 87's medical area, Fawkes in an anomaly among his brethren.