I just ran a 54/11/6 build through simcraft comparing against a 53/13/05 and 53/11/07 I get the following results.

54/11/6 - 6115 DPS
53/13/5 - 6103 DPS
53/11/7 - 6086 DPS

I wonder who we contact to get the higher dps spec included.

[Edit]

Sorry I tried the wrong spec Talent Calculator - World of Warcraft gives 6128 DPS.

I just edited the Hunter BM file used for SampleOutputPTR - simulationcraft - Google Code and changed the spec, it does take into account JoW, though it is over a 5 min duration which most current boss fights aren't so I'm wondering if that's what makes the difference.

The idea with the raiding spec section in the original post wasn't to come up with a "cookie cutter" spec, but to show a base spec with variables that each hunter would choose from to best fit his/her individual gear and raid situation. I have both 2/2 Survival Instincts and 4/5 Mortal Shots listed as options -- the spreadsheet DPS for taking either is so close that for many it is a matter of personal preference.

I debated with myself over whether to include points in Invigoration as another option. In the end I did not include it for several reasons: a) I never have any mana problems in a full raid buff situation; b) I had not seen any evidence that Invigoration provided enough mana to make it worth the points, either from personal experience, spreadsheet modeling, or testing.

Now that 3.1 is being released, we can see for ourselves whether the changes to Judgment of Wisdom and mana regen in general are going to put us into mana conservation mode, and if they do, whether having Invigoration will make the difference. Since Mikari's Simcraft numbers show Invigoration making a difference, I'll add that as an option to the first post. My understanding of Simcraft is that DPS numbers can vary each time you run it, to simulate the RNG in a given fight, as opposed to the spreadsheet, which tries to even out the RNG through averaging. Therefore, given the very close margin between using Invigoration VS Mortal Shots in the Simcraft results Mikari posted, I don't think we can declare Invigoration as the top DPS Talent over either Mortal Shots or Survival Instincts at this point -- but it does look like a viable option for those with a mana shortage.

On invigoration:

I agree fully with Rosamonde on its use in a fully buffed 25 man environment, it isn't needed.

I did run with it for a while as our mana regen was uncertain from raid to raid apart from replenishment - with only 2 paladins in the raid group JoW was no certainty, and neither was a BoW in its stead as BoK would be the first choice for dps (BoW doesn't seem to regenerate enough to be worthwhile)

To return to invigorations, 2/2 gives you back about 100 mana every time your pet crits; My pet has a (spreadsheet calculations) 53,79% chance to crit overall (including talents).
My pet uses a special every 1,31 seconds leading to 1 proc every 2,43 seconds on average.
My pets special rate and crit chance should be the same as most BM hunters as its based on:
Base agi for pet, additive buffs, multiplicative buffs, Spider's Bite (pet talent), Ferocity (hunter talent) and buffs (LotP, Rampage).

All this leads to 57,65 mps from 2/2 invigoration when the pet has BoK, agi buff (soe totem, horn of winter) and Rampage/LotP.
Thats 86,48 mana per gcd or 288,25 mp5 - with AS/SS mana cost of 252 thats more than 1 extra shot per 5 seconds from invigoration - so in mana starved environments its actually pretty good. And 1/2 is equally feasible if your mana starvations is less but you still need to viper.
The actual dps gain from invigoration depends on how severe your mana regen problem is in your raid environment.

now that 3.1 has acutally been released does anyone have a wws report or some sort of report to show how their dps actually worked out in a 25 man raid as a bm hunter? I personally am playing marks as of now, but am thinking about trying to find a viable bm spec. lemme know! thanks.

I have wws from the last 2 weeks, and I will be maintining wws parses of the ulduar fights we will be having this week as well.

Taking 5/5 Mortal Shots and 4/5 Imp Tracking in my current gear results in a loss of 7 dps, this with 38.97% crit and 7422 AP raid buffed. If I give myself ~5% more crit (44.42%), it is a loss of 5 dps, and if ~10% more (49.96%). it is a 3 dps loss.

This is only a rough comparison, since stacking more crit at current gear levels would cause AP to go down, while gaining crit through large gear upgrades would cause AP to go up. All I can say is try it out for yourself from time to time and see if it is an increase with the gear you have.

PS I will post up some WWS from Ulduar or 3.1 Naxx once I have some available.

Since we don't do 25 man raid till tomorrow night I can only show you pre patch wws (a bit useless)

I will screen somthing tomorrow if I find a fight thats comparable - so far Idon't see any from the 10 man we started tonight.

is bm going to be the highest dps?

According to the spreadsheet no. It's just not going to be as far off as it was post-3.0.8 nerf

I have looked for Gondria and also noticed other Hunters in the area at the same time. Im still looking for loque so i the thought of trying to find another spirit beast is a little disturbing right now.