A creature, possibly from Native American lore, is suspected of killing a man, bringing Mulder and Scully to the Indian reservation where the attack occurred in order to uncover its identity.
A group of loggers working in a remote forest unearths thousands of deadly insectlike creatures that paralyze and cocoon their victims. Scully, Mulder and a few others end up trapped there.
With the X-Files shut down, Mulder travels to Puerto Rico on a tip from his mentor in the Senate to uncover the reason behind the sudden reactivation of a remote long abandoned SETI-like communications station.
Mulder is on the manhunt for a Vietnam veteran who can project his consciousness into other people's minds to kill them. Mulder and Agent Krycek try to uncover the conspiracy behind the killer's powers.
Mulder and Agent Krycek are in a race against time to find and rescue abducted Scully before crazed Duane Barry can take her to what he believes to be his alien puppet masters.
While Agent Scully is still missing, Agent Mulder embarks upon an investigation involving vampires in Los Angeles, subsequently becoming involved with a sultry female vampire who yearns to escape her lifestyle.
Scully's comatose body is discovered at a local hospital and her life is hanging in the balance. When Mr. X shows Mulder the high price he'd have to pay if he truly wants justice for Scully, Mulder must choose between hope and revenge.
At a remote outpost, scientists watch as their camera picks up a moving shadow on the inside of a smoldering hot volcano, too hot for any living creature to survive. Mulder and Scully arrive and notice that everyone is acting strangely.
A vegan religious cult is accused of kidnapping local teenagers for some type of ritual. Mulder and Scully begin to suspect that a different kind of conspiracy is at play when Scully sees Deep Throat's killer in town.