This appears to be documented in other communications regarding the need to update to 9.2.1, but just putting it out there incase anyone else missed it, like myself....
If you have any IOS 9.2 devices showing in MDM, you will find they are unlikely communicating with JSS, and need to be updated to 9.21 to fix the issue.
It took a while to isolate the mater cause I had a few other odd iPads, come by with communication issues not talking to JSS, but after not having constant interruptions, and some time to sit down with just one iPad, I was able to find the source of the issue with a search filter.
Essentially it prevents the ability to collect statistics of what apps are on the device, and what profiles are installed. To find iPads affected, you will likely see that their profiles inventory tab is not showing any profiles listed.
e.g.
Criterial: Profile Name | Operator: Does Not Have | Value: MDM Profile
