No we did not find a solution. VMware support suggested that it was the appvolume process that was causing the issue but following the instructions given from them did not correct the issue.

My company even had outside VMware/Horizon consultants that we work with do a dive into the occurrences and they could not come up with any suggestions either. 

What we have been doing is have a script that monitors VM's that do not have that folder and resetting them when found.