Continuity mistake: At The Beginning when a man says: "We're not who we are", he says it differently when Scully watches the tape. (00:01:20)
Continuity mistake: When the presentation of IDs begins, dr Da Silva stands in a different position relative to the others than in the next shot. (00:07:00)
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