Factual error: The townspeople contracted Creutzfeldt-Jakob disease (CJD) from the bodies they consumed and it showed up in the brain tissue within a matter of weeks. However, this extremely rare disease takes several years to even be detectable. (00:18:55)
Other mistake: Unlike Mr Chaco, who has the brace clamped around his neck, Scully is clamped around the top of her head, which is a quite irrational way of executing a person, because the clamp does not serve as a stabilizer. In fact, in this arrangement, Scully is not fixed to the stand at all. (00:38:15)
Factual error: Mulder says that the events occur near I-10, however, I-10 is nearly 200 miles south of Arkansas's border in southern Louisiana.
Anasazi (1) - S2-E25
Other mistake: Immediately after a shot has been heard, Mulder, who is in flat #42, grabs his gun and rushes through the corridor passing by flat #47, which means he is still on the same floor. Within 10 seconds after the shot, the next-door lady is already aware of the crime. Not mentioning that 2 seconds later two policemen arrive at the scene. (00:07:21)
Anasazi (1) - S2-E25
Character mistake: Mulder asks Scully about "the fourth commandment about obeying the Sabbath, the part when God made heaven and Earth " However, Scully as a Catholic should know that this is the third commandment for Catholics. This is also an indirect indication that Mulder was raised in Jewish religion. (00:09:25)
Anasazi (1) - S2-E25
Visible crew/equipment: As Scully stands up to leave at the offices of the Navajo Nation, the reflection of a boom mike moving in one of the picture frames on the wall can be seen. (00:19:40)
Anasazi (1) - S2-E25
Continuity mistake: When the military man approaches the Cancer Man we can see at the background the helicopter's left-hand side. When they move towards the helicopter, now closer to them, we see its right-hand side. (00:40:14)
Anasazi (1) - S2-E25
Factual error: It is completely impossible the Thinker has made a digital copy that cannot be duplicated.
Answer: As he stated many times throughout the series, Mulder needed Scully to be sober and skeptical. Whenever Scully's skepticism wavered and she started questioning her own rationality, Mulder would try to restore her sense of skepticism, because he needed her to be clear-thinking.
Charles Austin Miller