Season One

Season Two

Season Three

Season Four

Season Five

Season Six

Season Seven

Season Eight

Season Nine

Season Ten

Episode/Production #/ Title

 

Plot Synopsis

Continuity Notes

Dates

Code

Season 6: Episode 1

6x01 The Beginning

A vicious creature, possibly of extraterrestrial origin, is cutting a murderous swath through the American Southwest.  With Syndicate infiltrators in control of the X-Files, Mulder and Scully must find it on their own, and determine its place in the alien conspiracy.

X-Files reopened, but Mulder & Scully reassigned.  AD Kirsch introduced.  No internal dates, but must occur shortly after the movie. Mulder's computer screen may indicate the date.

9/28/98 – 10/1/98

 

X

Millennium

Season 3: Episode 1

#301: The Innocents

Eight months following the fade of the Marburg Virus that killed Catherine, Frank and Jordan find themselves in Washington, D.C. Frank not only has difficulty getting back to work with the Federal Bureau of Investigation but also is given a hard time from Catherine’s bitter father. When the case of a plane crash full of identical blonde women seems to hold connections to the Millennium Group and other Marburg mysteries, Frank decides to join Special Agents Emma Hollis and Barry Baldwin in investigating.

It's been five months since the concluding events of Season 2, as per Dr. Chase and Andy McClaren.  Date of following episode indicates 10/5/98.

10/4/98  
Millennium

Season 3: Episode 2

#302: Exegesis

Frank Black and his new partner, Special Agent Emma Hollis, continue to investigate a family of identical women that are being systematically killed off. Are they the product of a Cold War experiment in remote viewing? If so, what is the now-murderous Millennium Group’s interest in having them brutally killed off?

Date indicated on hospital monitor.

10/5/98  
Millennium

Season 3: Episode 3

#303: Teotwawki

After a fatal shooting during a high school basketball game Frank Black, Emma Hollis, and Special Agent Barry Baldwin travel to Seattle to become involved in an investigation that will soon lead to a survivalist group supported by a high-brow computer corporation. It soon becomes evident that this group is so frightened of the predicted Y2K computer meltdown that they’re stockpiling food and weapons in preparation for their own Armageddon and willing to kill anyone, including their own children, in order to ensure their own survival.

Date indicated in email from 'Skylark.'

10/14/98  
Millennium

Season 3: Episode 4

#304: Closure

A heavily armed spree killer and his tag along friends are on the loose, killing for pure amusement, and the case leads Emma Hollis into thoughts regarding the violent death of her own sister. Frank Black, who had previously been keeping a distance between himself and his new partner, takes Emma under his wing to bring some closure to both their current case and her own personal demons.

Date indicated as 20 year anniversary of Melissa Hollis on 10/21/78.

10/21/98  
Millennium

Season 3: Episode 5

#305: Thirteen Years Later

To Frank Black’s dismay, a movie is being shot based upon an infamous serial killer case he himself solved 13 years ago. Things get a little out of hand when new murders begin occurring with the same pattern featured in the film and case files. Frank hopes to find the answers during the filming of the movie’s finale, at a KISS concert, while Emma searches famous horror films for clues.

Internal date provided on screen.  The band KISS appears in dual roles in and out of makeup.

10/31/98  
Millennium

Season 3: Episode 6

#306: Skull and Bones

When Emma Hollis and Barry Baldwin are dispatched to investigate a mass grave found beneath a highway construction site they come face to face with Peter Watts and a Millennium Group team. Frank Black, at Quantico investigating the case through a reclusive and paranoid man who seems to have witnessed the killings, tries his best to determine what interest the Millennium Group has in the deaths. Both Frank and Emma soon discover the Group may have sinister intent and that anyone who uncovers the truth may be in grave danger.

Internal date provided on letter Nov 5, 1998 from day before.

11/6/98  
Millennium

Season 3: Episode 7

#307: Through a Glass, Darkly

When a child disappears in a small town, attention immediately turns to a recently released sex offender tried and convicted for similar offenses twenty years ago. Frank Black and Emma Hollis arrive on the scene and are quick to point out that this man may not be deserving of their blame and their hate for him is blinding them to the true series of events.

Internal date provided on screen.

11/7/98  
Millennium

Season 3: Episode 8

#309: Human Essence

A series of events in Vancouver reveals that Emma Hollis’ half-sister has developed a heavy drug habit which is affecting Emma’s position with the FBI. Emma is soon faced with a painful choice. Should she drop the matter to preserve her role with the Bureau or get to the bottom of what local addicts claim to be a series of bizarre mutations being forced on them through tainted heroin?

No internal dates provided. Likely some time in November prior to the following episode.

November, 1998  
Comic: The X-Files/30 Days of Night

Trade pb: The X-Files/30 Days of Night

 

Mulder and Scully head to Alaska to investigate a series of grisly murders that may be linked to vampires.

Crossover story serves as a prequel to the 30 Days of Night movie, novel and comic-book series, making it part of the X-Files Universe. Dating is my own based on the fact that the original 30 Days of Night story was written/published in 2002, and must, therefore, take place prior to that.

Early November, 1998

W

Season 6: Episode 2

6x02 Drive

A carjacking and subsequent highway chase have an inexplicably deadly ending: an innocent victim's head explodes. Disobeying FBI orders, Mulder investigates and becomes a high-speed hostage himself.

Mug shot indicates date.

11/15/98 – 11/16/98

G/E

Season 6: Episode 3

6x03 Triangle

Hauled onto a World War II era ocean liner trapped in the Bermuda Triangle, Mulder must get his bearings, fight off Nazi raiders, ensure that democracy survives in the twentieth century, and save the life of his paramour Scully.  Or is it all a dream?

Date indicated.  Recovery time required.  Bracketed date indicates date of Mulder's experience.

11/16/98 – 11/18/98

(9/3/39)

F

Season 6: Episode 4

6x04 Dreamland I

After a close encounter near Area 51, Mulder becomes trapped in the body of another man who, unbeknownst to Scully, assumes her partner's identity.  1st appearance of Morris Fletcher.

No internal dates given, but must be after the above episodes.  Due to time travel, this story only occurs over the course of two days.  Dates in brackets indicate time prior to reverted dates.

11/23/98 – 11/24/98

(11/23/98 – 11/25/98)

H/F

Season 6: Episode 5

6x05 Dreamland II

While Mulder learns how he's switched bodies with Morris Fletcher, Scully discovers the true identity of her "partner."  But this knowledge leads only to an unsolvable and tragic dilemma.

See above.

11/23/98 – 11/24/98

(11/25/98 – 11/28/98)

H/G

Season 6: Episode 7

6x06 Terms of Endearment

In a "normal" middle-class community, a mother is accused of murdering her late-term fetus.  Mulder, however, suspects an even more shocking crime.

 

12/13/98 12/16/98

S/H

Millennium

Season 3: Episode 9

#308: Omerta

Frank Black decides to take Jordan on a Christmas vacation rather than allow her to dwell on the fact that this will be their first holiday without Catherine. The small Vermont town they travel to proves to be less quiet than expected, however, when the two become involved with a dead Mafia hit man who appears in the woods looking very much alive! What is the secret behind two magical women living amongst the trees and what effects do they have on those they heal?

Calendar shows December 21st while Frank and Jordan are Christmas shopping

12/21/98  

Season 6: Episode 6

6x08 How the Ghosts Stole Christmas

On Christmas Eve, Mulder and Scully are trapped in a house haunted by its murder-filled history, and encounter the mansion's original owners, a misfit husband and wife team.

Internal dates provided.

12/24/98 12/25/98

H/L

Millennium

Season 3: Episode 10

#310: Borrowed Time

Frank Black and Emma Hollis investigate a series of apparent drownings that occurred on dry land and discover that each and every victim had cheated death once before. Could these people, all members of a near death experience support group, be living on time borrowed from heaven? The case turns shockingly personal when Jordan falls terribly ill and Frank notices a man from the recent crime scenes, clad all in black, standing by her bedside.

No internal date provided. Jordan is back in school after winter break. Date my own.

1/2/99  

Season 6: Episode 10

6x09 Tithonus

Separated from Mulder and teamed with another FBI agent, Scully pursues a crime photographer with an uncanny ability to predict death – or, perhaps, cause it.

Internal dates provided.

1/3/99 – 1/12/99

F

Season 6: Episode 9

6x10 S.R. 819

An unknown, deadly microorganism – connected to a shady U.S. government trade deal – is found replicating in Walter Skinner's bloodstream.  In just a few precious hours, Mulder and Scully must identify the bioagent, discover its propagators, and save their friend and former supervisor.

No internal dates provided.

Epilogue: 3 weeks later.

This is the last appearance of Senator Matheson, as Mulder, feeling he was directly involved in the nanotechnology that threatened Skinner, no longer uses him as a contact.

1/15/99

Epilogue: 2/5/99

G

Season 6: Episode 11

6x11 Two Fathers (part 1)

As a prelude to the colonization of Earth, Syndicate scientists successfully create a human-alien hybrid.  The slave-race prototype is abductee Cassandra Spender, who reveals many secret conspiracies and connections to Mulder and Scully who are plunged into a climactic battle for global domination.

Cassandra Spender dies.

 Jeffrey Spender is shot by his father.  Many members of the Consortium are killed.

2/8/99 – 2/10/99

X

Season 6: Episode 12

6x12 One Son (part 2)

Cassandra Spender outlines the real connections between the Syndicate, the warring alien factions, a half century of sinister experiments, and the abductions of Scully and Samantha Mulder.  Using her information, the agents reach the end of their long quest – and confront a worldwide apocalypse.

Mulder & Scully reassigned to the X-Files.  Conclusion of former mythology.

2/10/99 – 2/12/99

X

Millennium

Season 3: Episode 12

#312: The Sound of Snow

Frank Black is forwarded a mysterious copy of a cassette tape filled with audio white noise. A trip back home to Seattle illustrates that people all over Washington state are being sent the tape, and its effects are killing them! Refusing to drop the investigation, Frank submits himself to the tape’s power again and again, leading him to a shocking reliving of Catherine’s death and a powerful meeting from beyond the grave.

No internal date provided.

Early February 1999  
Millennium

Season 3: Episode 13

#313: Antipas

When murder and mayhem become frequent at the estate of a Wisconsin politician, Frank Black snatches the case from Emma Hollis in order to pursue the woman he knows to be committing the crimes: his demonic nemesis, Lucy Butler. Now posing as a nanny, what are Lucy’s plans for the politician’s daughter? Frank’s investigation becomes personal and dangerous when he learns, once and for all, what Lucy’s plans are for his life.

No internal date provided. Date based on surrounding episodes.

Mid-February 1999  
Millennium

Season 3: Episode 14

#314: Matryoshka

An investigation conducted by Frank Black and Emma Hollis into a retired FBI agent’s suicide leads to some confusing information that links the Bureau to the Millennium Group’s modern rebirth 50 years ago. Piling evidence and personal memoirs also imply that both organizations had their hands in the powerful historical events the occurred at the Los Alamos nuclear research center.

Internal dates provided ("316 days remaining")

2/17/99-2/19/99  

Season 6: Episode 15

6x13 Arcadia

Residents of an upscale, uptight suburb are disappearing without a trace.  Mulder and Scully go undercover – as a "typical" married couple – to investigate.

Internal dates provided. 1st case back on the X-Files.  Time needed beforehand for preparation to go undercover.

2/24/99 – 2/28/99

C/H

Season 6: Episode 16

6x16 Alpha

A wolflike creature from China – long thought extinct – is cutting a murderous path through California.  Aided by an animal behavior expert with suspicious motives, Mulder and Scully must somehow track it down.

No internal dates provided.  Estimated dates my own.  Mulder acquires new "I Want to Believe" poster.

3/2/99 – 3/4/99

W

Season 6: Episode 18

6x18 Milagro

A struggling young writer, obsessed with Scully, seemingly has the power to make his grisliest fantasies come true.

Internal dates indicate this should take place not long after Valentine's Day.  Mail has a 2/8 postmark, yet that would place this prior to 6x13 which is their first case back on the X-Files.  Likely Padgett had not picked up his mail in awhile.  Also, this must occur after 6x16 as Mulder has a new 'I Want to Believe' poster.

3/8/99 – 3/10/99

 

N/F

Season 6: Episode 14

6x15 Monday

Trapped in an endless time loop, Mulder and Scully are fated to live the same day – the day that they die – over and over again.

No internal dates provided.  Estimated dates my own. 

3/15/99 – 3/16/99

F

Millennium

Season 3: Episode 15

#315: Forcing the End

Acting as swiftly as possible while the opportunity presents itself, a fundamentalist Jewish group abducts a pregnant woman, hoping to gain ownership over the woman’s unborn child. They hope to fulfill biblical prophecy by raising a pure child for the new millennium, forcing it into the priesthood, and leading the second coming of the Messiah at the yet-to-be built third temple in Jerusalem. Emma Hollis suspects Millennium Group involvement in these events and is shocked when Peter Watts reaches out to her to help close the investigation.

Internal date provided on screen.

3/17/99  

Season 6: Episode 1

6x17 Trevor

A violent prisoner gains the ability to walk through walls, unleashing a series of horrifying murders as he searches for what is his own.

No internal dates provided.  Begins on Tuesday.  Dates my own. 

3/22/99 – 3/23/99

K

Millennium

Season 3: Episode 11

#311: Collateral Damage

Peter Watts is forced into the most distressing of circumstances when the eldest of his three beloved daughters, Taylor, is abducted by an enraged Gulf War veteran who has turned to violence, hoping to push the Millennium Group into admitting their crimes. Frank Black and Emma Hollis, part of the help effort, are met with great conflict from the bitter Watts who seems sorrowfully determined to let his daughter die rather than betray the secrets of his Group.

No internal date provided. College campus celebrating Greek Week, which in 1999 occurred from late March to early April.

Late March 1999  
Millennium

Season 3: Episode 16

#316: Saturn Dreaming of Mercury

Jordan is filled with uneasy knowledge that the devil has come to town when a new family moves into the Black’s neighborhood. Frank’s unsure how to handle the situation when an imaginary friend named Simon leads Jordan into a biting incident at school, an attack on the family’s father, and violently uncharacteristic behavior. Could Jordan’s now advanced powers of perception be identifying the presence of evil? Emma is hurt when Frank refuses to reveal what it is he and his daughter are cursed to live with.

No internal dates provided

Late March 1999  

Season 6: Episode 19

6x20 The Unnatural

A rabid baseball fan, Fox Mulder makes a startling discovery: Something alien has infiltrated his beloved national pastime.

No internal dates provided (begins on a Saturday).  Likely not too far from Scully's birthday.  Flashback takes place between June 29 and July 2nd, 1947.

3/28/99 – 3/29/99

H/X

 

Season 6: Episode 20

6x19 Three of a Kind

On a fishing trip to a convention in Las Vegas, the Lone Gunmen find murderers, shadow government conspirators and a long lost love.

Sequel to 5x01 (Unusual Suspects). No internal dates provided (other than 1999).  Likely takes place over the weekend.

4/2/99 – 4/4/99

G

Millennium

Season 3: Episode 17

#318: Darwin's Eye

Frank Black and Emma Hollis are forced to consider how many of their cases are truly ruled by conspiracy when a young girl, put in an asylum after being accused of murdering her parents, escapes from captivity with the help of a willing Sheriff’s Deputy. Are the girl’s rants regarding evolution and constant drawing of crossed palm trees a sign that there may be a more complex cover-up at work? Or is she, like Emma’s ailing father, simply going mad?

Internal dates not explicit, but appears to be seven year anniversary of the murder of Cassie Doyle's father on 4/18/92. Seven years indicated by Dr. Heath.

4/18/99  
Millennium

Season 3: Episode 18

#317: Bardo Thodol

The discovery of a cooler full of living hands draws Emma Hollis’ attention to mysterious research conducted by former Millennium Group member Dr. Steven Takahashi, a man now afflicted by a disfiguring and deadly disease. These secrets leave one murderous Millennium Group operative desperate to kill Takahashi as Frank Black holds watch by his bedside. Emma engages in a desperate attempt to lash out at the Group with the knowledge she’s gained, hoping to prove she can do so on her own.

No internal dates provided.

April 1999  
Millennium

Season 3: Episode 19

#319: Seven and One

Frank Black, for the third time in his life, ends up on the receiving end of a series of disturbing Polaroid photographs. This time, however, he begins questioning his own sanity, for the digitally enhanced photos depict the victim of a horrible drowning accident and the face in the Polaroids is his own. Is a ruthless demon seeking to push him over the edge into madness? Frank’s painful childhood memories and the FBI’s opinions that he is a crazed man make it all the more difficult for him to confront the evil attempting to ruin him.

No internal dates provided. Nine months since Frank was in psychiatric care after the death of his wife.

April 1999  
Millennium

Season 3: Episode 20

#320: Nostalgia

When a dog digs up a freshly severed woman’s leg, Frank Black and Emma Hollis travel to a small town, where Emma spent part of her nomadic youth, to investigate. Frank, from the start, knows fully well who the culprit is but a lack of evidence forces him to engage in a dangerous game of slowly breaking down the killer’s psyche, thus forcing him to reveal his own crimes.

No internal dates provided.

Early May 1999  

Season 6: Episode 21

6x21 Field Trip

After being exposed to a bizarre hallucinogenic, Mulder and Scully are trapped inside a subterranean cave and the dark recesses of their own minds.

No internal dates provided.  Recovery time is needed following the events of this story.

Early May 1999

N/V

Millennium

Season 3: Episode 21

#321: Via Dolorosa

As Frank Black watches one of his greatest foes, Ed Cuffle, die in the electric chair he assumes he’s found a way to put evil behind him. Shocking serial murders with patterns familiar to Frank prove, however, that someone’s found a way to bring Ed back. Emma Hollis’ father’s illness takes a dangerous turn, forcing her through a series of painful choices. Peter Watts emerges from the shadows with arms outstretched to Emma, offering her father a cure in exchange for assisting the Millennium Group. As Emma and Peter enter into a silent agreement, Frank, Barry Baldwin and the FBI make a desperate attempt to stop the new Ed Cuffle.

Internal dates provided on screen.

May 14-21, 1999  
Millennium

Season 3: Episode 22

#322: Goodbye to All That

With Frank Black being held responsible for Barry Baldwin’s death at the hands of a Millennium Group assassin, Emma Hollis further distances herself from her former mentor while gaining Millennium Group membership. The Federal Bureau of Investigation dismisses Frank once and for all from its ranks, an act which pulls the Bureau and the Millennium Group closer to each other. Frank, Emma, and Peter engage in angry attacks against each other as the new Ed Cuffle continues to leave a trail of bodies. The battle will end in role reversal for all, an end to things as they once were, and an uncertain future.

Internal dates provided in prior episode and on computer screen ("224 days remaining")

 

Final episode of Millennium. Frank and Jordan Black return in The X-Files: Season 7, Episode 4 episode "Millennium"

May 21-22, 1999  

Season 6: Episode 13

6x14 Agua Mala

A deadly creature is slithering through the water system of a seaside town.  Mulder and Scully are called down to investigate and arrive in the midst of a killer hurricane.

Must be after 6x20 where Mulder learns Arthur Dale has moved to Florida.  Hurricane season in Fl. runs from June 1st to November.  Mulder requires recovery time afterwards.

Two days in early June 1999

B

Comic: X-Files Annual 2015: "Most Likely To..."

Mulder and Scully go undercover at a high school reunion to uncover the disappearance of a student with exceptional abilities.   1 day in summer 1999 P

Season 6: Episode 8

6x07 The Rain King

In rural Kansas, thousands of drought-stricken citizens are being forced to enrich the town drunk – who seems able, through mystical means, to control the weather.

Internal dates provided, specifically 6 months from 2/24.  The year is established by the fact of a 20 year reunion of the Class of '79. 

8/14/99 – 8/16/99

H

Season 6: Episode 22

6x22 Biogenesis

An extraterrestrial artifact may hold the key to the origins of life on Earth.  Mulder must unravels its mysteries before it destroys him.

Start of new mythology.  Kritschgau returns.  Mulder incarcerated for unspecified period of time following this episode.  See 7x04.

9/26/99 – 10/1/99

X

 

Episode Theme Codes

 

A: Artificial Intelligence, technology and machines gone bad

B: Bugs, creepy-crawlers and parasitic pests

C: Cults, tribal practices and bizarre religious rites

D: Drama

E: Evil experiments and other scientific blunders

F: Fantasy, Philosophic theory, and Time paradoxes

G: Government conspiracies (unrelated to the mythology)

H: Humor

K: Killers (serial & spree), psychopaths; the human monster

L: Local legends: Bigfoot, lake monsters, etc.

M: Monsters, mutants and malformed menaces

N: Nightmares, Dreams and Visions

O: Occultism, devil worship, demons and dark forces.

P: Psychic manifestations (telepathy, telekinesis, etc.,)

R: Reincarnation, transmigration and other pagan beliefs

S: Spirits, ghosts and apparitions

U: UFO's (unrelated to the mythology)

V: Viruses, bacteria and other nasty microbial matter

W: Werewolves, vampires and zombies

X: The Alien/Conspiracy main plot thread of the mythology

?: Unknown

 

 

 

 

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Disclaimer: Many of the above plot synopses are taken from the log lines of The Official Guide to the X-Files: The End and the Beginning.  No copyright infringement is intended or implied.  This is a non-profit site used strictly for entertainment and educational purposes.  All text and images are © 2005 Twentieth Century Fox Film Corporation and ©2005 HarperCollins Publishers.