Well even if it can lasts 2 months I think he said he didn't feel any flu like symptoms till after 2 months....if your body were going to go nuts on you because of the change to primal I would think it would have happened at the start of the 2 months not the end. Ketosis is said to produce a strong smell of acetone I think.
There are things I've heard of called Ketostix you can buy to test your self for Ketosis. You could very well be in Ketosis though I'm still not sure it would be that causing your flu like symptoms. I don't know I hope you get to feeling better soon.
Primal start date: July 1st 2011
Start Weight: 275
Current Weight: 248
Stats below as of September 1st 2011 Tested via BodPod
Body Fat 25.4%
Fat Mass 63.721
Fat Free Mass 74.6%
Fat Free Mass 187.087
Goal weight: 180-200 lbs(Recommended weight is around 180 for my height but that sounds low)
Total lost so far: 27 lbs