an estimated 3000 metric tons of helium are generated per year throughout the lithosphere.
I think the main issue here is not that we are loosing helium on a planetary scale but that the easy to reach helium from gas wells is wasted. We will never run out of helium at our current rate of consumption before the sun goes nova, if we consider all sources on earth, but it will get a lot more expensive and the supply will get less steady.