I have just installed the upgrade from Sage 100 Premium v2016 PU1 with JobOps A to the v2016 PU2 with JobOps B. Easy Peasy. No really, the easiest Product Update I have done in quite a while. As a side note, this client just went live with JobOps on Monday, so it was quite a decision to do so after just a few days.
Of note, the words JobOps no longer appear on the menu; now it reads Manufacturing. It's going to take some time to get used to this change. :)