A small Indian man on a creaky cart with powers of illusion is believed to have the ability to take over people's bodies and kill them by leaping into their anal cavity. Doggett and Scully try to stop his gruesome killing spree.
Skinner and Doggett investigate a case Mulder was working on before he disappeared involving a family and a monster straight from Native American lore.
Scully stumbles upon a woman whose abductee experience and symptoms are amazingly similar. The fear now is that both their upcoming births will be to non-human offspring.
Jeremiah Smith appears out of nowhere and formerly dead abductees are coming back to life, giving Scully and Skinner the idea that Mulder may have a shot at still being alive.
Three months after Mulder's funeral, another dead alien abductee comes back to life. Skinner exhumes Mulder hoping that he too can be revived. Skinner faces an impossible decision when Krycek offers him a vaccine that can save Mulder.
Mulder requests reassignment to the X-Files but is denied by Kersh. When a man with information about an alien invasion is killed on the White House lawn, Mulder conducts his own investigation to find further evidence of colonization.
Upon being fired, an office worker murders his employers, believed to be under the influence of pure evil. Agent Reyes believes this evil may be linked to the death of Doggett's son.
Doggett and Mulder unwillingly team up investigating an oil rig where some mysterious murders have happened and the possibility of the Black Oil being involved is a haunting reality.
While Doggett's investigation of Deputy Director Kersh hits difficulties, the agents encounter a beautiful woman with the ability to remain submerged underwater.
Doggett attempts to uncover the truth about a woman with superhuman abilities who is somehow connected to scientific experiments being conducted in a lab aboard a secret ship that stays at sea year round.
A professor/inmate in a psychiatric ward may be influencing other men to kill ritualistically. Though Doggett sees it as pure manipulation, Reyes can't help but suspect none else but the devil himself possessing the professor's body.
Agent Dogget has been shot and hospitalized. The only suspect is his partner. However, she was 14 miles away when the shooting occurred. The team sticks together to solve the case of being in two places at one time.
Doggett and Reyes investigate a teenage boy who may have the ability to control insects and uses it to kill. Scully and a pushy, pompous, flirtatious entomologist assist them.