I think it's pretty easy to say that Beau De Mayo did an excellent job with this show, and unfortunately it may very well be possible that things get worse after the second season (word is that two seasons were finished before his unfortunate departure).
However, I foresee (as in I am only making an educated guess) that there will be an announcement soon, perhaps in San Diego this July, that Charley Feldman will be the new showrunner. She's been the supervising producer and wrote/cowrote four episodes (so far) this season. I think Charley would continue to take this show in essentially the same direction, and she's the most logical candidate to take over.