They don't really get together until the last episode of season nine,"The Truth". When they run away together as fugitives. But in season seven mulder kisses scully on new years "Milenium" and he kisses her again at the end "Existence" of season eight and nine,"The Truth".And we can see a scene with Scully getting dressed in Mulder's bathroom,in "All the things", she comes apparently naked and we can see Mulder half undressed and apparently totally undressed.
scully nicknamed mulder "spooky"
Scully's Theme
Ineke Mulder was born in 1950.
Vin Scully's birth name is Vincent Edward Scully.
Karen Mulder was born on June 1, 1968.
Scully tells Mulder that is pregnant in "Requiem",before Mulder's abduction she say that to him.
Mulder and Scully lost time in the pilot episode of The X-Files. It happens when they are driving on a road and the car dies. Years later Mulder finds himself in the same location.
In the episode "All Things" in season seven, it is implied that Mulder and Scully sleep together. The episode begins with Scully getting dressed in Mulder's bathroom, meaning she was also naked in his bathroom. It is known that the only bathroom in Mulder's apartment is off of his bedroom, which means that Scully had to have been in his bedroom with no clothes on or walked through his bedroom with no clothes on in order to be getting dressed when we first see her. This raises the question: why was Scully undressed in the first place? Then, when the camera pans out, we find a sleeping Mulder, lying on his bed covered with a sheet and apparently nothing else under it. This means that Mulder and Scully were both undressed. Did they sleep together? I think that's what we're meant to think. So that's one possibility: Scully was impregnated that night by sleeping with Mulder. The other possibility apparently is that Scully got pregnant by implanting embryos into her uterus. We find this out in the episode Per Manum in season 8. In this same episode, we find out that Mulder provided the sperm for said embryos. Mulder and Scully also hint that he is the father before kissing in the final episode of season 8 and Scully refers to William as our son in The Truth, the series finale. So, the best guess is yeah, he's the father.
"Jose Chung's 'From Outer Space'"
"Scully loves Mulder and Mulder loves Scully, it's a wonderful romance" - Chris Carter (creator)
It was implied in the episode "all things" which aired during Season 7. During Season 8 is was also implied that Mulder was the father of Scully's baby. In the recent movie, "I Want to Believe," there was a scene where Mulder and Scully are talking while in bed together.
Umm...the FBI...get a clue, dummy. They only mention it in EVERY episode!
Season 7, episode "All Things"
Mulder confesses his love to Scully in the season 7 episode "Millennium." While trapped in a life-threatening situation, Mulder tells Scully that he loves her, but it's left ambiguous whether he meant it in a romantic or platonic way.
It was implied in the episode "all things" which aired during Season 7. During Season 8 is was also implied that Mulder was the father of Scully's baby. In the recent movie, "I Want to Believe," there was a scene where Mulder and Scully are talking while in bed together.
scully nicknamed mulder "spooky"
He did it in the Season 5 episode Chinga because Scully was away on vacation and he was bored.