This is one of the things that I keep bringing up to people everytime I hear or read about these mega dairies that are built in the more arid areas which make it less essential for all the needed land to produce their own crops and such. They buy in all their feed, from land that is irrigated by water that is brought up from the "resevoirs" of water deep under the surface, use gallons upon gallons of water for the animals, for the cleaning and all needs on the dairies and that water does not make it back into the underground reserves in a clean pristine condition. These places are not long term sustainable because the water is going to run out. When it does, we are definitely going to see some major problems because it will eventually come back to roost.
We cannot keep depleting the water reserves underground without consequences eventually. But it doesn't seem to be of a great concern to these companies, or the governing bodies that allow them to come in. Once these water sources are gone, we are really going to be screwed... we cannot live without water.