Wrangham's name is on the python paper but I have no clue how much work he actually did on the project. It is very common in academia for supervisors who have done no or little work to have their names put on papers above their subordinates. I do not know if that is what happened in this case or not. How is it that you are aware that he was "intimately involved?" If you're basing that on anything other than the position of his name in the citation I'd love to see it.
This is just quibbling. The fact is that Wrangham is the one who's been interviewed concerning this paper, not Conklin-Britton or any of the others, so he must have been intimately involved in the whole process - scientists who claim credit for work they haven't done tend to get blacklisted, so it's a career-killer for them to to do so. Granted, you may claim that Wrangham set the conditions/requirements of the test and some junior scientist did the actual experiment, but, even so, that means that Wrangham still had a major influence on the experiment, one way or another. So, really, it's up to you to prove that Wrangham had no control or influence over the various cooked-food studies he cites, despite his writing about it, being the main one interviewed about it etc.
As per what I know of the Oste study (mainly what is reported by Beyondveg), it is perfectly plausible, absent evidence to the contrary, that enzymes and some nutrients are destroyed at 40 degrees Celsius but that no significant changes to the digestability of the protein take place until temperatures of close to 100 Celsius are reached. Just because charred, well done meat is significantly less digestible than raw does not require that meat cooked rare be at all less digestible than raw (yes, some nutrients are destroyed, but that is entirely a separate question.)
This is a mere technicality. Here's another study which proves my point:-
http://jn.nutrition.org/cgi/reprint/7/4/367.pdfThe above is a comparison between raw meat and 3 types of cooking at various temperatures, 1 of which involved cooking at 66-75 degrees Celsius for a period. All 3 cooking-methods showed a decrease in nutritive value and a clear drop in digestibility of meats after heating:-
"By the criterion of growth promoted among young rats(table 3), quite parallele differences are deduced. The raw meat is superior to all the cooked products, since each gram of raw meat protein eaten produced 0.78+/- 0.7 gm greater gain(i rats) than did that auto-claved 1 hour, 0.17 +/- 0.6 more than the boiled and 0.14 +/- 0.06 more than that autoclaved 7 minutes.
The other aspect is that since enzymes start getting destroyed at c.40 degrees Celsius, digetibility of meat is reduced. Yes, I know, that pro-cooked-advocates deny the uses of enzymes in raw food, but given the above facts re digestibility of protein being reduced at only slightly higher temperatures, it's clear that they are quite wrong.
As per the creation of AGE's and other toxins, in all things it is the dose that creates the poison. While these substances are arguably detrimental in large quantities and probably never beneficial it is still an assumption to believe that in small quantities the body is incapable of dealing with them without lasting harm. Dr. Eades has pointed out that no evidence exists that the consumption of AGE's in ones diet causes any increase of AGE's to be stored or formed in the body. I don't know if he's right, but I haven't seen any evidence to contradict him. This point on AGE's seems applicable to both vegetables and meat. Your other point on phytonutrients versus antinutrients seems to me to be a question solely of quantity consumed without regards for preparation method.
As regards AGEs, Eades is merely expressing an opinion, based on no real data. All the studies show, unequivocally, that the more AGEs you ingest via cooked-food, the worse your health becomes(eg:-
http://www.circ.ahajournals.org/cgi/content/full/110/3/285)
The very fact that it takes time for people to get diseased from the accumulation of AGEs implies, by definition, that the AGEs are stored in the body until a critical point is reached. So, Eades is clearly wrong. Besides, there are plenty of studies focusing on the formation and accumulation of AGEs in tissue:-
http://www.jleukbio.org/cgi/content/full/71/3/433http://www.springerlink.com/content/rwm8p2pyb4kj3q5w/As regards the toxicity of AGEs, yes, of course,it's all a matter of degree - boiling is better than frying which is better than microwaving etc., but raw is far better than any cooking-method, on an overall level. I am not suggesting that AGEs are as toxic as cyanide but they are clearly a cause of physical degeneration of the human body as a result of eating cooked-foods. It is true, that extremely microscopic traces of AGEs can be found even in raw foods, which the human body can easily handle, but the amounts of AGEs in cooked-/processed foods is so much greater, by comparison, that the body is not equipped on an evolutionary level to deal with those much higher amounts. To argue that humans are adapted to the amounts of AGEs we consume(ever since the invention of cooking), you would have to prove, unequivocably, that we need to eat AGEs in order to live(that is, if you support Wrangham's and others' claim that cooked food is "better/healthier" for humans than any raw food) or(if you believe that there's no real difference between raw and cooked food) you have to prove that the human body can tolerate the amounts of AGEs present in cooked-foods - something which has been disproven by numerous scientific studies, detailing the links between AGEs and diabetes/macular degeneration etc. etc.:-
http://www.rawpaleoforum.com/important-info-for-newbies/info-on-toxins-in-cooked-foods/Re phytonutrients:- Heating reduces phytonutrient levels. But, yes, it's a matter of how many there are:- too many, and they cause harm, too few and there's no benefit(unless one believes the zero-carbers, that is).