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This is a great question as I have been wanting to post something about the best new feature in LANrev 7.2.1. There is a new Information Item called "Mobile Device Command Details". Drag that Information Item to your Queued Commands and your Command History and it will tell you which application is trying to be installed. If you have not upgraded to 7.2.1, the upgrade will make your troubleshooting trivial.
Your other option is to read log files which no one wants to do.
Thanks for the response Rob. The problem looks to have been the "Convert to managed application if already installed on device (iOS 9 or newer)" option being checked on the apps assigned to the policy. Once I deleted them all and added them back, and unchecking that option, the issue seems to have disappeared. I don't see that popping up and quickly disappearing under Queued Commands anymore. I'm going to check Command History to confirm, but it will probably take a while for that to load.
On the error commands, if you have figured it out, I would just search for them in the history and mass delete them.
Yep, that was it. Thanks Rob!