Corrected entry: In this episode, Scully has a flashback in which she tells Mulder that she's learned she is barren, after which Mulder confesses he knows and the reason is because her ova were removed and stored in a government facility. However, in the earlier episodes 'Christmas Carol' and 'Emily', while appealing to adopt her biological daughter Emily, Mulder tells the appeal guy right in front of Scully that her ova were removed by doctors and she is shocked. If the flashback scene happened before the Emily episodes, she wouldn't have been shocked when Mulder told the appeal guy about the ova removal and if it was after it, she would already know about it because Mulder told her in those episodes. The flashback makes no real sense.
The X-Files (1993)
1 corrected entry in Per Manum
Starring: Robert Patrick, David Duchovny, Annabeth Gish, Gillian Anderson, Mitch Pileggi
Visible crew/equipment: When Mulder and Scully enter the abandoned mine through a doorway, the viewer can see at right in the distance a number of people sitting on a wall, and one crouching in front of the wall with what looks like a dog. They are sitting still, but there is still movement there. (00:16:00)
More quotes from The X-Files
Trivia: The Cancer Man smokes Morley cigarettes, a fake brand that has appeared in a number of TV shows and movies since the '60s.
Question: In a vast majority of the episodes, whenever Mulder and Scully investigate some mysterious or paranormal phenomenon, Mulder believes that some unknown force is responsible but Scully always has a rational explanation for what is happening. In other episodes, when Scully herself is caught up in something mysterious, she is the believer but Mulder is the skeptic. In those episodes, why would Mulder be skeptical about an unexplained phenomenon considering that he a was witness to his own sisters abduction and he saw many strange things that defied explanation while working for the F.B.I.?
Answer: A variety of reasons. Just because Scully saw something unusual does not mean that it was. Mulder always needs concrete proof before he'll believe there's some otherworldly explanation for unexplained phenomena. He's too experienced to take a novice's explanation as fact. It is also a plot by device by the writers to switch the tables on the characters to make it more interesting and to let viewers see another side of their relationship.
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Correction: The scene in this episode isn't a flashback, it is either a dream or a hallucination of Mulder that Scully is having.