The stuff In your tonsil crypts is called tonsillolith or Tonsil Stones, it builds up in the holes in your tonsils no matter how much you brush your teeth or rinse with mouthwash. It is harmless other than the discomfort of having large ones. You can remove them by pressing on your tonsil with your finger or the end of your toothbrush etc. And when they come out if you squish them they stink something aweful.
As for everything else this going on with your situation I would diagnose you with Morgellons or Paranoid Parasitosis. Seriously not trying to offend you, it is a real disease and you need to talk to your doctor about it.