I would recommend against introducing the Flagyl quickly myself, as well.
Especially if one is in an ambigious situation (no confirmed CPn test, etc) I think it is valuable to do the following: Take your temperature when you take your pills (morning and night), and over a month, you get an idea what your temp looks like. Then take it 3x a day while on the Flagyl. If it shoots up mildly that can be an indication that you're on the right track. Not perfect evidence, but useful; and impossible if you add it all at the same time.
Sarah, I'm pretty confident that Alpha Lipoic Acid is ideally absorbed on an empty stomach. http://www.todaysdietitian.com/archives ... 4p56.shtml
..But this is "ideal" absorption of course. There was one study where they couldn't even find ALA in the blood of MS patients if they took less than 1200mg a day so I wonder about its value, but note that Charles Stratton recommends its use at a lower dosage while on the CPn regimen, so there is conflicting information out there. I was taking 1200mg a day but that's a bit expensive so I stopped.
I also tend towards much higher levels of fish oil and B12, but that's just personal preference. I do fish oil at 6-8 grams. I'm also doing B12 3cc injected Sub-q (at least twice a week) and 20,000mcg orally every day. In addition to being healthy, the b12 induces a a decent buzz and energy burst at that level!
The latest information I got from my doctor regarding endotoxins shows that he's being very cautious about their potential impact. He's suggesting Charcoal caps x20 at 10am, 3pm and 8pm, and Questran at 10am and 3pm. Although this is a lot of pills to take, I've switched to this myself, and am regretting having taken so little previously.
ljm, no matter what you decide to do, will you please keep us posted?
This is all just advice, you have to make these decisions for yourself, but it's quite helpful to others if you let us know what you decide and what results.