I just got this on Thu, Nov 25 and I'm currently wondering if I should return it to the store. I am quite happy with my Reader but this boot loop after large data transfers is becoming absurd.
I first noticed the PRS-650's boot loop problem after loading on my entire library of eBooks from calibre (around 59 non-news eBooks). The device upon being ejected from calibre went into a boot loop after trying to scan its internal flash storage.

I learned from that mistake that I should close calibre first and then unmount the device manually from within the OS.
This time however, the device has gone into a boot loop despite having been unmounted from the OS manually. I currently have over 200 MP3s totaling over 700 MB that I was planning to listen to while I read my books on the PRS-650. After copying the files to the device, unmounting it and going to the music application, the device went into a boot loop. This was without having played a single track yet, which I found rather strange.
So my question to you all is should I just chalk this up as one-time problem or return the PRS-650 and either wait for it's successor or a custom firmware that fixes these problem?
Update: I have hard reset my PRS-650 (thanks to GhostDreamer's instructions
here) and tried transferring the MP3s over again with the same result.