lombo, the answer to your question about yielding is a qualified "yes". It is not purely gross yielding, but a combination of things. Remember, at the microscopic level, nothing is perfectly smooth, flat, etc. which is why Rod and Greg mentioned things like "bedding in" and flattening of surface roughness. Coatings on the surface of the wheel and the lug nuts also play a roll in this process, as friction has a dominant influence on any assembly joined with threaded fasteners.
Natural aging is not really a consideration, as you mentioned. For all of the reasons mentioned previously, new wheels require some amount of "break-in" after which the surfaces remain more or less static with respect to each other.