After viewing "The Attic," I did a little Googling, and came across this (contains spoilers through "Epitaph One"):
Asking the Wrong Questions: Alpha and Omega
The article makes an excellent point about how it would be impossible for the first half of S1 to have come from the original pilot. The author is right. Given the information that was provided there, I have to wonder if S1 would've looked more like S2 has, and if the show would've gotten to the point much sooner without Fox's interference.
Just a general link: Dollhouse Wiki