I love the dark, gritty feel and low budget aspect of season 1. Squeeze, Ice, Gender Bender, Lazarus, Shapes, Tooms and The Erlenmeyer Flask are classic X Files. You should dig those.
Spoiler: Thinking about it now, I forgot how dark the earlier alien conspiracy episodes were like Deep Throat.
The show definitely comes into it's own for season 2. It runs amazing till season 6. I love 6 as stated but for some 6 onwards is where it falters. I honestly think season 7 is pretty weak (the last one with Mulder as a regular which isn't a spoiler really). I really loved season 8 as well. 9 is a mixed bag but has some great episodes as well.
Anyways, what I'm trying to say is keep at it. You'll finally catch that one episode that's going to hook you and you won't be able to resist watching. I guarantee it. tell us all what episode that starts with as well.
@
RhettButler added more quintessential episodes!