Thanks for the reply. Yes my original scripts do not try to run the notifications as the logged in user so when my original scripts ran (as root) this behavior was originally happening. Most, if not all, my new scripts and packages are being ran in a local test Dev group so I have eyes on the Mac when I am trying to execute and deploy the scripts.
One thing I have noticed that seems to be different from when I was running 9.0 Mac agent to now the 9.5 SP2 Mac agent is the behavior of LDKahuna and LDGidget. LDGidget used to create a temp directory right in the sdcache folder to extract a file...now when I look at the logs, it looks like a completely different temp directory is created in /var where it extracts and tries to run rather than the actual file getting extracted to the sdcache folder. All my extcatctions with ldgidget end up with "not finding a file to execute" in the log history.