So everything works fine for you and everyone having problems are clearly doing weird things and don't even try to resolve it, right? Since a bug doesn't trigger in your or the developer's environment, it clearly means that it cannot exist.
FYI: I've tried all of those things, moved buildings, turned on/off buildings. I've even written a complete config file maker that even pulls my character professions off of the armory, to specifically enable those professions. Writing the config files like that makes it really easy for me to test for specific buildings causing trouble, since I can turn them all on/off for all my profiles.
I have tried running it on my stationary, and also on a clean install of Win 8/.net/wow/HB on my laptop with problems both places, albeit slightly different ones. Common to both is the inability to run through all profiles without weird stuff happening. Weird enough, some of the problems do only happen whilst run from HBRelog and not when redoing the bot manually after.
I haven't mentioned what my HBRelog times are so I have no idea why you assume it's 30 minutes. Generally they are around 15 minutes. If something gets stuck and not finished within 15 minutes, I run the task manually later to see what happens and I've noticed the stuck issues with char jumping in the same location. Things that could make this happen is different combat routines and even something stupid as using different mounts that may or may not drop the char off a few pixels differently and thus getting the char stuck.
If you rule out the obvious usage errors, these are issues that are either caused by HB itself being unstable (could be, but since a lot of other things are fairly stable all the time, this would not really explain it all), the combat routines are buggy (happens, but rarely to that many at the times), or the bot itself has buggy code. Other variables like I said, is what mount you use, could be installed addons that is messing with the bot, or even frame lock issues that is hardware/driver related. In my experience, programs that behave like this are generally badly written with regards to error checking and whatnot, so that bugs slips through unnoticed and just appear as random weird stuff happening. Could also be that the underlying API is buggy or even doesn't provide error indications, which I'd have no idea about since I never checked out the HB API throughoutly.
My statement that it's gradually becoming less stable is based upon running it for nearly 4 months with the exact same setup, config (apart from the one time the format changed), buildings, professions and hardware in my regular afk HBRelog setup.
You really need to change your attitude and read what people are saying instead of just bouncing it off as a RTFM issue since yours work fine.