Just wanted to clean up an unanswered thread of mine. From my testing it looks like unmounting the USB flash drive after I perform a backup operation is the most effective and safest way to ensure all the files have been written to the USB flash drive and prevent any issues with hot swapping.
I also made a number of safety checks to my log backup to better deal with missing or faulty drives. Here's where I got some of my inspiration:
http://stackoverflow.com/questions/2366 ... dy-runninghttp://www.symantec.com/connect/downloa ... automationhttp://louwrentius.com/blog/2011/08/scr ... illing-up/Hope this helps someone else.