I'm a big EFC fan.
Yes, the first season is probably the best season. Overall, it has the strongest stories, the plotting across the episodes is well done, and the premise of the show is very intriguing that even when the season took a spill, you still wanted to check it out.
The second season is a very mixed bag. The first half of the season is very uneven as the writers were trying to figure out how what direction they wanted to take the show. The first half has nearly every sci-fi story type you can have. Liam is an interesting addition to the mix, but it is clear the writers didn't think the concept behind his character out as much as they should have when starting out.
By the mid-point of season 2, the show finds its footing again in this new direction and it leads up to, what I think, was a fantastic cliffhanger finale. Season 3 is more of this and the show stays pretty consistent. However, by the third season, the Taelons (embodied by Zo'or) have become very one-dimensional.
Season 4 is awesome and I rank it almost at a season 1 level. The show displays a progression not seen since the end of season 2. Although the US turning against the Taelons and the Resistance joining with the government seems to pop up a little too quickly, the arc of the season is well designed and the season ends on a fairly satisfying note if that was the end of the entire series.
Then came season 5 which, say what you will about the previous seasons conflicting with one another, takes the show in a completely different direction. It could be forgivable, if the season was somewhat good, but it just really wasn't. I'll admit, the season did have a decent sense of internal continuity, but it's just a mess all around. It is clear that some exec somewhere saw that Buffy was popular, so EFC should ape Buffy. EFC had previously lifted stuff from other popular things (such as when
The Matrix hit, suddenly Liam is wearing a long, black trench coat and Renee is all Trinity-ed out), but season 5 was shameless.
I remember liking the pilot episode (which was written by Gene Roddenberry as I recall), but I didn't follow the series much after that.
Not quite. The aired pilot is significantly different from Roddenberry's version. Both had the same general plot line (Boone joins Resistance), but how that all went down is very, very different. Putting Roddenberry's name as the writer was more of a tribute than anything else.