Well, after all that trouble, and moving everything over to USB, it turns out the USB interface is crap and that there is a driver bug that makes USB unworkable for that audio interface. I'm investigating competitor's options now, hopefully they won't have the same driver bug.

http://support.presonus.com/entries/21477544-Is-my-AudioBox-compatible-with-USB-3-0-
http://forums.presonus.com/posts/list/32657.page
http://forums.presonus.com/posts/list/33427.page
http://forums.presonus.com/posts/list/45417.page
http://www.amazon.com/review/R3BPEEMAR9P5TG/ref=cm_cr_pr_viewpnt#R3BPEEMAR9P5TG