Hi Lloyd,
the fact that settings, favorites etc. are forgotten is probably due to the fact that each PI instance (=process, =GU window) uses its private set of settings. This is a "feature" of PI that personally find rather annyoing/surprising. You are using multiple PI instances, as I can see from the screenshot.
To void using multiple PI instances, prefer the use of workspaces within one instance.
As long as you cant reproduce the crash, the developers can probably not do much about it.
Georg