My Survival PvE post has been updated for 3.1.
I have finished the major work for the 3.1 PvE guides for each Hunter talent tree.
Theoretical DPS for Shaedon with each spec (86e spreadsheet):
6597 DPS - Survival
6118 DPS - Marksmanship
6089 DPS - Beast Mastery
The spec that has gained the most DPS, come 3.1, is Marksmanship by far.
In the current 3.0.9, when I spec Marksmanship, I do 5312 theoretical DPS. So Marksmanship is getting about an 800 DPS boost, which puts it much closer to Survival.
Surprisingly Beast Mastery is, theoretically, right on the heels of Marksmanship. It will be interesting to see if many Ulduar fights are pet friendly.
My next project is to update the BM PvP page for 3.1, as I still have the most experience in Arena as a BM Hunter (got up to 2108 this season).