32 minutes at 09 seconds, when Dr. Chester Banton leaves the room, one of the lights is just behind him, so his shadow should have destroyed Mr X. All this becomes even clearer to the viewer in a few seconds.
Twice in the lab scene Doctor Davey refers to the particle accelerator as being two billion mega-watts (MW). The first time he says "a couple of billion mega-watts. Virginia Power loved us." He then refers to Chester getting a "Two billion mega-watt X-ray".
Two billion mega-watts is 2,000,000,000,000,000 watts. The output of the single largest power station in the world (The Three Gorges Dam in China) is only 22,500 MW. It would therefore take around 90,000 power stations of this size to provide 2 billion MW.
CERN (the home of the Large Hadron Collider) has a peak power usage for the entire complex of only 200 MW. Clearly the small device featured in this episode is not going to require 2 billion MW or even 2 billion watts (2000 MW).
Two billion mega-watts is 2,000,000,000,000,000 watts. The output of the single largest power station in the world (The Three Gorges Dam in China) is only 22,500 MW. It would therefore take around 90,000 power stations of this size to provide 2 billion MW.
CERN (the home of the Large Hadron Collider) has a peak power usage for the entire complex of only 200 MW. Clearly the small device featured in this episode is not going to require 2 billion MW or even 2 billion watts (2000 MW).
Zooming in on Dr. Chester Banton's jacket on the security tape shows frames of impossible angles from the original tape.
In the teaser, as Dr. Banton is backing up across the hotel hallway, his shadow goes under the closed door of Patrick Neuwirth's room and emerges on the other side, touching Neuwirth's feet in the room. This is not physically possible - something situated on one side of a closed door cannot create a shadow on the opposite side of the door (unless the door is made of transparent material, which is not the case here). Banton's movement would have caused his shadow to go UP the opaque surface of the door, not underneath it. The writer could have solved this problem by simply having Neuwirth open his door to see what was going in the hallway.
At the scene of Patrick Neuwirth's disappearance, Mulder tells Detective Ryan to check the prints on the hallway light bulb against those of the hotel's employees and registered guests. It should be noted that Police can get fingerprints from hotel employees and registered guests, but it involves considerable resources and is unlikely to be authorized under most circumstances.
The opening shot of the hotel's exterior is clearly reversed, as an extra can be seen entering/exiting the building backwards.
The Richmond police patches have the emblem of the U.S. Department of the Treasury on them, which would not be the case as the Richmond Police Department is not part of the federal government.
At the train station, "Frederick" is misspelled as "Fredrick" multiple times on a sign.
At Ryan's funeral, none of the policemen are wearing black mourning bands on their uniforms, which would be done if a police officer has recently been killed.
The Virginian public use license plate on the Richmond police cars are an outdated design from the 1970s, consisting of white letters stamped on a blue background. By 1995, they had been replaced with a design consisting of blue letters stamped on a white background.
In the Richmond alleyway, multiple Canadian-spec traffic signs are visible: "Do Not Enter" sign (red circle with a white line running through it) and "One Way" sign (black rectangle with wordless white arrow) are visible.
The hotel in Richmond has a Washington, DC flag out front.
When Mulder and Scully are first meeting the detective in the hotel, she tells them the victim is "up from Raleigh-Durham." Raleigh and Durham are two different cities. If she meant the general area rather than either of the two cities specifically, it's referred to as the Triangle, not "Raleigh-Durham." A Virginia detective would probably know that.
If the shadow acts like a "black hole" ripping atoms apart, why doesn't it affect all the matter it falls on? Why only people, their clothes and what they are holding (like the officer's guns)?
In the teaser, Dr. Banton is knocking on the door of the hotel room wanting to speak to someone inside named Morris. At the end of the episode at Det. Ryan's memorial service, Mulder tells Scully that "a Dr. Morris West" affiliated with Polarity Magnetics has filed a missing persons report on Dr. Davey. Dr. West is undoubtedly supposed to be the "Morris" that Banton was trying to speak to, but this appears to be the first time Mulder has heard of him. Which implies that during the investigation of Neuwirth's disappearance from his hotel room, no one ever bothered to check who was in the room right across the hall, or question them to find out if they had seen or heard anything or were in any way connected to what happened.
After finding a used train ticket in Margaret Wysnecki's waste basket, Mulder tells Scully to have Det. Ryan get a police detail down to the train station, without giving her any idea - or having any idea himself - of what they should be looking for.
People create shadows on their own bodies all the time with their arms and hands - it's virtually unavoidable. Therefore, if the premise of the story is to be accepted, Banton should have been his own first victim.