The devices (ring, glove, etc.) used to "focus" remind me of a radio transmitter in regards to their ability to interact with the stones. It seems to me the stone acts as a simplified satellite picking up the radiation waves from the device, in which the bond between trainer and pokemon is a sort of catalyst to streamline the transmission process. Perhaps the radiation emitted by human and pokemon are a vital part of the process only in regards to their ability to enhance the connection between stone and device. In essence the natural capacity for interaction between stone and device is distorted and therefore difficult or impossible to function without the assistance of the bond. The biggest mystery to me in this case is why this particular variety of stone with natural radiation-absorption properties seems to only appear in Kalos. Incidentally this likely connects with the stones in the Geosenge area, which also seem to have some way of reacting to electromagnetic properties of pokemon or Lysandre's device. Perhaps the stone obelisks are geodes of some kind and the mega-stones are parts of the internal crystalline formation common in geodes, with slightly different crystalline patterns reacting to different pokemon bonds in their roles as catalysts.
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