X-Files Season Eight

Within
New Deputy Director Kersh has Agent John Doggett investigate the missing Mulder case. Doggett's skeptical treatment of Mulder's disappearance puts a thorn in Scully and Skinner's sides. Newly appointed Deputy Director Kersh organizes a manhunt for Mulder and assigns Agent John Doggett to head the team. Scully and Skinner go along with the investigation but are warned by Kersh that they will be fired if anything is said about aliens. Scully , along with the Lone Gunmen, surmise that the Bounty Hunter is trying to erase all evidence of abductions and they realise that he may be going after Gibson Praise, who is now living at a school in Arizona. Agent Doggett comes to the same conclusion and his team race Scully and Skinner to the school where they find Mulder trying to kidnap Gibson.
Without
Scully leads Skinner and an unhappy Doggett to Arizona to protect Gibson Praise from an Alien Bounty Hunter disguised as the missing Mulder. As the search for Mulder intensifies in the Arizona desert, Gibson Praise leads Scully to believe that she is truly closer to her target. Meanwhile AD Kersh informs Agent Doggett that he has been assigned as Mulder's sucessor on the X-Files.
Patience
Scully isn't exactly warm to Doggett on their first X-File together in which they investigate a human bat. While tackling his first X-File case about a series of gruesome murders surrounding a bat-like creature, Doggett quickly learns that his investigative techniques are somewhat dissimilar to Scully's.
Roadrunners
Doggett is a little dismayed when Scully investigates a murder in a barely inhabited town in Utah without him. When Scully's car breaks down and she finds the town people aren't as sweet as they seem she struggles to find a way out of the demented town. Scully evades Doggett's help in investigating a vicious murder in a remote area of Utah and she is trapped in the small town by a religious cult that believe a slug-like creature is the second coming of God who needs a human host to survive.

Invocation
Doggett and Scully once again butt heads on their latest X-File which involves a boy who has returned after being missing for ten years but still appears to be seven years old, the age he was the day he was abducted. Having been kidnapped for ten years, a little boy mysteriously reappears in the same place as he was kidnapped but somehow has not aged one bit while he was away. Doggett and Scully investigate the case further but find that something is definitely not right with the child.
Redrum
A man lives the most recent 5 days of his life backwards and finds out that he is the main suspect in the murder of his wife. A prominent lawyer wakes to find himself in jail and about to be prosecuted for the murder of his wife. He has no memory of this event however, and when the days begin to regress backward towards the murder, he realizes that he has been given a second chance.
Via Negativa
While Scully tends to her secret, Doggett and Skinner team up to track a cult leader who may be a psychic assassin. Working without Scully's input, Doggett and Skinner try to avert the mysterious murder spree of a drug-induced, religious cult leader and it becomes clear that the man can enter the dreams of the people he knows and can kill them in their sleep.
Surekill
Doggett and Scully deal with a killer who may have X-Ray vision. When a real estate agent is shot inside a prison cell by someone who apparently fired from the roof, Scully and Doggett track him to two exterminators, one of whom has x-ray vision.

Salvage
A man believed to be dead from Gulf War Syndrome comes back to life and slowly turns into metal. Doggett and Scully encounter a dead man who is still living - only somewhat changed. What they discover is a man made of metal, enacting vengeance on those he believes created him and caused this horrid process to happen to him.
Badlaa
A small Indian man on a creaky cart is believed to have the ability to leap into people's bodies. An Indian mystic whose son died in a chemical plant accident smuggles himself into the United States and takes his revenge on two families in suburban Washington D.C.
The Gift
Scully and Doggett investigate a case Mulder was working on before he disappeared involving a family and a monster straight from Native American lore. Doggett comes upon an old case that Mulder kept secret from Scully, and decides to investigate it in more detail hoping to somehow find a link to Mulder's possible whereabouts. But while investigating Doggett stumbles onto something that he never knew about Mulder but all of this information comes at a high price when his life is put in danger.
Medusa
Doggett takes to the Boston subways to try to figure out where a deadly virus that is killing citizens is coming from. Scully and Doggett race to investigate a string of bizarre deaths in the tunnels of the Boston subway system linked to a mysterious killer. But the agents are put under pressure when they have to investigate the case on a short deadline because the subway is going to be reopened.
Per Manum
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. When Scully and Doggett are contacted by a man who claims his wife was murdered shortly after giving birth to an alien baby, Scully digs deeper into reports of alien fertilization on humans and she begins to question her own pregnancy and it's conception.

This Is Not Happening
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. When Teresa Hoese, the woman Scully & Mulder met the previous spring in Oregon just before Mulder was abducted, is found in a desert, returned from testing done on her by aliens, Doggett alerts Scully that this could have something to do with Mulder and his whereabouts.
Deadalive
Billy Miles, thought dead, is found alive and Scully still thinks the still-dead Mulder can come back to life; meanwhile Skinner comes in contact with Krycek who may have a clue as to what exactly is happening with these dead-alive abductees. Shortly after Mulder is buried, Billy Miles is found very dead but somehow comes back to life. Skinner and Scully put all their hopes into digging up Mulder and discovering that he too, is still alive. As Mulder lies in hospital without indication that he is going to fully recover, Krycek comes to Skinner and offers him a vaccine to the virus that has infected Mulder - but the cost of the vaccine is that Skinner has to kill Scully's unborn child.
Three Words
A man is shot on the White House lawn with a disk titled "Fight the Future"; Mulder, on the brink of expulsion from the X-Files, investigates while Doggett uses an old friend from the military, Knowle Rohrer, as an insider to the possibility of a conspiracy. Mulder's request for reassignment to the X-Files is denied by Kersh, who hopes that Mulder will simply quit the FBI. When a census worker is killed on the White House lawn trying to get information to the President, Mulder gets in over his head trying to discover what the man knew.
Empedocles
When some of us are vulnerable we can let pure evil come inside us, like in the case of a recently fired worker. But does the evil inside him have a connection to the murder of Doggett's son Luke? Agent Reyes enlists Mulder's help investigating a killer's connection to the unsolved murder of Doggett's son. They investigate but find no connection, Reyes continues to believe that a thread of evil is linking all the murders together.

Vienen
Doggett and Mulder unwillingly team up investigating an oil rig where some mysterious murders have happened and the possibility of the Black Cancer being involved is a haunting reality. Teamed with a new partner while Scully's on maternity leave, Doggett investigates the mysterious disappearance of two men aboard an oil rig. After he disappears as well, Mulder defies orders and searches for him, but soon becomes convinced that the rig is carrying the black oil. So Doggett and Mulder must try to stop the spread of the oil and avoid the infected.
Alone
A bizarre reptilian creature captures Doggett and his new Mulder-obsessed partner underground and only a X-Files deposed Mulder can help them. While Scully takes maternity leave, Doggett is partnered with a young agent who is fascinated with the X-Files and has followed Mulder and Scully's careers. She and Doggett investigate the death of an old man and the disappearance of his son but when they disappear as well, Mulder, despite having left the FBI, heads out to search for them.
Essence
The X-Files team must protect Agent Scully and her unborn child as groups of Super Soldiers try to stop her pregnancy. Mulder and Doggett join forces to investigate the arson attack on a genetics lab where one of the doctors suspected of experimenting with alien impregnation is killed. They encounter Billy Miles, who has been changed into an alien replicant after his recent abduction and is attempting to erase evidence of the tests; part of the Syndicate's conspiracy with an alien race. When a woman helping Scully out at home is found to be a part of the conspiracy, the agents, along with Monica Reyes and Alex Krycek, know they must protect Scully and her baby from Billy Miles and get her out of the city.
Existence
Agents Mulder, Doggett and Skinner investigate (along with Alex Krycek) the Super Soldier conspiracy, while Scully goes into hiding to have her child. With otherworldly factions in pursuit, Mulder and the agents race to safeguard the birth of Scully's child. Scully and Reyes take refuge in an abandoned town where Doggett grew up. Meanwhile Doggett and Skinner have the final showdown with Alex Krycek and continue to fight off the replicants but how successful will they be?