Factual error: Lewis Brady had a "Felon wanted by the FBI" file in 1929, but the FBI wasn't called the FBI until 1935; until then it was just the "Bureau of Investigation." (00:34:30)
Continuity mistake: When Mulder and Scully are moving into the house, there is a shot of Mulder's watchface which reads that the date is the 7th. A few minutes later, Scully is walking around with a video camera, and narrating and she says the date is February the 24th. (00:08:35 - 00:09:30)
Plot hole: Agent Spender watches in horror as Alex Krycek stabs the neck of an alien directly in front of him and the usual bubbling green blood spills out. In every other instance of a human being in such close proximity to the green blood, the person has immediately taken a painful reaction to the substance, including severe damage to the eyes. Spender however is completely unaffected, as is Krycek, who was also close enough to feel the effects.
Suggested correction: The Syndicate is well aware of the effects that the alien blood has on humans and the inherent risk of being exposed to it. They would have inoculated Spender and Krycek in preparation for this.
There was no inoculation ever mentioned to counter the effect of the acidic blood. Also, Spender wouldn't have let someone randomly inject him with something with no explanation, it would be completely out of character, and he was surprised at what happened.
Suggested correction: I think that this is to do with where he is hit. I don't recall anyone suffering the toxic effects when the weak spot at the back of the neck is successfully hit with the spike weapon. When Mulder tried to kill the alien bounty hunter (think it was in Colony?) He missed the weak spot, which is why the blood had an effect on him and the bounty hunter survived.
Continuity mistake: In the scene where the Riley Animal Hospital sign lights up, the time comes across the bottom of the screen saying 6:21 p.m. The scene then cuts to inside the animal hospital. However, the clock inside does not read 6:21. It reads somthing roughly before 6.
Continuity mistake: During the conversation with Scully regarding Wayne Weinsider, Mulder says "I don't know why. I'm not a psychologist", which must be a big surprise for all viewers, to say the least. Mulder graduated from Oxford University with a Bachelor of Arts degree in Psychology (e.g. "Dreamland II") and he worked for some time as a profiler for the FBI (e.g. "Young at Heart"). (00:32:25)
Continuity mistake: It seemed strange that Mulder was surprised not to find the Arthur Dales he knew at his apartment, when in "Agua Mala," he learned that Dales had moved to Florida. (00:08:30)
Character mistake: Scully continually addresses the senior police officer as "Captain." But he wears sergeant's stripes. As a law enforcement officer continually dealing with other law enforcement officers, Scully is not likely to make this mistake. More likely a failure to match script with costume.
Continuity mistake: When Frohike plays the slot machine, the first position on the reel shows a single bar. After Byers spots Suzanne, the camera goes back to Frohike and the first position now is not a single bar. There wouldn't have been enough time between the shots for Frohike to have another pull of the machine. (00:10:15)
Factual error: The Beginning of the episode shows a baseball game taking place in Roswell, New Mexico. A ball smashes into a sahuaro cactus. The only place in the United States of America where sahuaros grow is in the Arizona desert. There are none in New Mexico.
Factual error: In this episode, Mulder says, "In 1996, a rock from Mars was found in Antarctica." The rock ALH84001 was found in 1984, and the announcement that it may contain life came in 1996. (00:17:55)
Factual error: The alternate version of Scully is identified as an OSS agent, but the OSS did not exist in 1939. (00:34:35)
Visible crew/equipment: When Scully asks Mulder, "Are you losing it?" the boom mic is at the top of the screen. (00:23:20)
Field Trip - S6-E21
Continuity mistake: At Mulder's 'funeral' around when there is a knock at the door, we see Frohike raise his bottle to take a swig. The shot cuts to facing Scully and we can see Frohike further in the background and his bottle is nowhere to be seen, when he should've been mid-swig.
Continuity mistake: When Mulder and Scully first see the artifact rubbing in Skinner's office, the rubbing is quite faint and lightly done. A couple of times during the episode, the rubbing becomes darker and heavier drawn.
Continuity mistake: At The End, when Scully is trying to wipe sand and water from the moving tide away from a section of spacecraft, she stands up and the camera pans out; she is suddenly 3 feet away from the ship and several more away from the tide line.
Audio problem: Fellig is confronted by the murderer and you can hear the sound of a switchblade knife opening. When the knife is shown in Fellig's back and later in the evidence bag, however, it is a butterfly knife and not a switchblade.
Factual error: This episode begins with Scully doing a voice-over about the incredible nature of our universe. The scene is very impressive visually, and would have been from the aspect of her oral presentation had it not been for a major error in the script. She says (more than once) that the universe is made up of matter and gas. This should have been "matter and energy". Gas is a form of matter.
Other mistake: This episode establishes that whenever Pinker Rawls passes through solid matter, his clothes remain behind, as anything he is wearing does not share his ability. However, late in the episode when Jackie throws the pot of boiling hot soup at him, the soup is shown to completely pass through his shirt, when it should have stuck to his shirt instead.
Continuity mistake: When Dr Cabrera says "Let him go," the blonde female assistant is on the left of the male assistant, but in the next shot she is on his right. (00:39:30)