Im trying to find away around all of our 3rd party extensions being blocked in System Preferences. It seems that no matter the configuration we choose, if we manipulate anything within System Preferences for a profile then any 3rd party item (Flash, mySql, Jabra, Java etc) are greyed out. These can all be used in other ways but the convenience of starting the programs from there is being voiced by our end users. Maybe there is something simple I am missing with this, but any help would be appreciated!
@jcapitan I ended up creating mobileconfig files for different roles, and removing system preference management from the profile. So I apply the other settings I need for each role and then adjust the settings in following mobileconfig for each role.
@L4d1k While I have an ever-growing list of things I wish Meraki could do, this feature was silently implemented. If you enable the System Preferences Payload at the bottom you can list the Third Party System Preference Panes you wish to enable. You can use http://apetronix.com/find-pane-id-for-system-preferences-app/ to get the pane-ID for the apps you need to whitelist.
The template in Meraki acts as a whitelist, so anything 3rd party essentially gets blacklisted by default. You can use Profile Manager in the macOS Server app to specifically white or black list any prefs pane. My GitHub has an example profile I made in that tool that just blocks the Profiles prefs pane, thereby allowing anything else not explicitly blacklisted.