I feel incredibly bad for Skully. She is a medical doctor who was recruited by the FBI because of her qualifications. Then, as she'a just getting starting with the bureau, they assign her to this guy Mulder and give her the task of debunking him. So, right off the bat, the FBI upended her entire career path only to give her a dead-end assignment, for which she's grossly overqualified.
If that's not bad enough, every case starts with Mulder making wild, unsubstantiated claims based on incredibly flimsy evidence. She uses her scientific knowledge to calmly and rationally put forward a more plausible theory, only for Mulder's insane hunch to be proven right against all logic and reason.
When I was a kid, I thought Mulder was smart, but watching it as an adult, it seems more like he's an incredibly lucky dumb-ass. Seriously, every episode is like:
Skully: "Looks like a serial killer that takes body parts as trophies."
Mulder: "Skully, look at these footprints. These shoes are very large. I think we're looking at a Frankenstein that's trying to build himself a Bride of Frankenstein."
Skully: "Mulder, don't you think it's more likely that it's just a tall serial killer?"
Mulder: "Yeah, but they're, like, really big. Like, size 13. It's a Frankenstein."
Then, 42 minutes later, it turns out it's a Frankenstein, and we're all supposed to think Mulder's some kind of genius, and Skully was just too pround and stubborn to listen to him.