Well the good news is that it is related to Jungledisk, once killed no more hanging or delays. Regarding the 'sample process' output, I cant do this at exactly the same time as the alfred popup is hanging as the whole desktop freezes. I did however capture the output a few seconds afterwards - let me know if you would like to see it. However, this problem is definitely related to v2 as I have no problem running v1 with Jungledisk. Let me know how to proceed.
Thanks Andrew!