Blossom End Rot is only caused by inconsistent watering that interrupts Ca availability. To get more sciencey, the inconsistent watering causes a depletion of the apolplastic pool of water soluble Ca2+ within the cells of developing fruit. This happens when the developing fruit are very small prior to visible symptoms.
Now the EarthBox system provides a consistent root zone moisture level and many time only the first fruit will develop BER. This is primarily the incidence when using garden center transplants where it is common for the grower to limit watering, resulting in the transplants receiving inconsistent (wet/dry cycles) before the home gardener even buys the transplants.