When you started to increase metabolism, did you persist with the heating foods (referring to Stone), even if they made you feel like crap? I've just had a bowl of chocolate rice cereal and pasteurised goat milk and I have gas :/. I hear that Stone recommends the heat protocol for at least 30 days (like any "diet"), so I'm planning to just get through it and hope I feel better afterwards. (I've also bought a thermometer)
I've gone through my diet changes (since trying to clear acne and respect my body) and in a nutshell this is what my life was like from the age of 19. (I'm now 22)
July 2010: Visited Doctor for suspected anaemia. Blood tests came back ok and the Doc didn't do anything else for me. (underweight, dark circles, extremely pale and very tired with hormonal acne) Started reading up on health and nutrition but didn't change diet.
July 2011: Went gluten free with persistent acne. Broke down a lot with the stress of university too.
February 2012: Eliminated all processed foods, did a 2 month candida cleanse. Ate mostly salad and chicken, low carb.
March 2012: Paid for a food intolerance test (with hair sample). Turned out that most of the "healthy" food I'd been eating, I was intolerant to.
July 2012: Went 100% Paleo (mostly with fats and strictly no grains), even lower carb but ate red meat (having cut it out 6 years prior) and a lot of nuts. Baked a lot of sugar free goods with Almond flour.
February - March 2013: Further restricted my Paleo diet with Auto-immune protocol. No eggs, FODMAPS, nuts, seeds, nightshades, pork or dairy though I wasn't eatting dairy, having cut it out in 2008)
May to present day: No vegetables, some fruit, a lot of dairy, high carb, less meat, no supplements and less fear of food. Still have the same problems I had in July 2010: Acne, dark circles, cold feet but I'm also bloated most of the time now.