Those stones shouldn't be doing anything at all, their usage hasn't been implemented yet =p
It is however very alarming that the boss is teleporting you to the village... I have no damn clue how that could be happening, if you could give me more info about that, I would be very thankful. Is this a once off thing? Has this happened anywhere else? Did it happen on your previous run (the stone won't be affecting it). Did this glitch happen every time that the boss hit you, or just one, very peculiar time? Did the game teleport you instantly, or were you flung there by some overwhelming force that sent you flying through the level geometry? What was going on with the morph? It sounds like you were forced to morph, but that shouldn't be happening...