No, it likely doesn't recrystalize in your lungs, but for some reason it is often purported that holding in the smoke is undesired. A dirty synthesis could leave unwanted amounts of solvents, and this could possibly be a reason to avoid inhaling.
Perhaps heavy meth smokers try to let the smoke effectively absorb through their throat/esophagus, being aware of the sometimes painfull results of inhaling. It is possible that this seemingly irrational behavior is a product of the drug induced paranoia often accompanied with amphetamine usage.