I am looking into some fried microsd cards that I've seen from BeagleBone Blacks. I'm not sure what is causing the problem yet, but while reviewing the BeagleBone Black schematic I noticed that the VDD_3V3B regulator looks like it might have swapped input and output capacitors. According to the manual for the regulator,
http://www.ti.com/lit/ds/symlink/tl5209.pdf, the minimum output capacitance should be 2.2uf, but the schematic shows a .1uf capacitor for the output capacitor, C20. Just wondering if that was on purpose. I don't think this is the cause of the fried sd cards I'm seeing because there's plenty of capacitance at the microsd port, but it looked odd to me.