The transition from not agents to agents confused me so much that I had to go back and watch the tail end of the first episode. I think that it would have been better to give them a little bit more runway to get them back into their old routines and explain why that happened. Hadn't Fox and Skinner's last conversation ended with them agreeing that something needed to happen, but that the system they had worked in was too flawed? And then they're back and they're going to get to the bottom of it all, and there are all those world ending, Machiavellian schemes and loose ends, and they...are investigating a random guy (graaaaah Sanjay Gupta!!!) who committed suicide?
Fox are airing the episodes out of order. "Founder's Mutation" was actually shot as episode 5.
This the order how the episodes were shot:
My Struggle 10x1
Founders Mutation 10x5
Mulder and Scully Meet the Were-Monster10x3
Home Again 10x2
Babylon 10x4
My Struggle II 10x6
According to a blog, this descision was made by Carter and his team, not by Fox.