@Joe, I can explain why you're only seeing Gnome Editor.
The foreground agent only runs, adds, and removes foreground commands. Gnome Editor is a foreground command. You're only running the foreground agent.
You seem to have run the foreground agent under root too, which would have added a second computer with a different computer ID. You can see the ID in ~/.TRIGGERcmdData/computerid.cfg. Then you installed the background agent under root using root's home directory by running installdaemon.sh as root.
You should delete the /root/.TRIGGERcmdData directory and the corresponding computer record in your account, so all you have is the /home/jhupcey/.TRIGGERcmdData/computerid.cfg computer. Then, while logged in as jhupcey, I think if you run this, it will install the background agent and configure it to use /home/jhupcey/.TRIGGERcmdData:
sudo /usr/share/triggercmdagent/resources/app/src/removedaemon.sh sudo sh /usr/share/triggercmdagent/resources/app/src/installdaemon.sh
I don't have time to test this right now - I can later today though. I realize I need to do that and produce some better documentation on this. Sorry about that.