@noahb5 - We set our notification config profiles to scope to devices by using smart mobile device groups that say "App Name has [App Name]"
When setting up the profile, you'll need the App Bundle ID (which can be found in your Mobile Device Apps).

With the "Allow Notifications" box checked, the iPad will force notifications to be allowed, even if the end user chose to disallow them when the app was originally set up.
Hope this helps,
Eric
I tried your instructions but i noticed if the app has never been run before, say it was auto installed by VPP, the notification function is permanently disabled, It doesn't even show up as a setting in Settings - (App Name). Even after running the app the notification function stays disabled, regardless if the Configuration Profile is setup to force Notifications to be turned on. The only way I've found to fix the issue is to remove the Notifications Configuration Profile, run the app again, the app should prompt you to enable or disable notifications, and then apply the Notifications Configuration Profile again. Any ideas on a fix for this issue?
I'm having the same issue. I set up a notification configuration profile specific for a few apps, including Self Service. When you initially run Self Service (or the other apps I scoped into my profile) it doesn't ask you if it may send you notifications. The apps scoped aren't listed in Settings/Notifications. I attempted to send messages but no notification/badge came up, regardless that the profile configuration stated otherwise. I then removed the notification profile I built, opened Self Service, and then it asked to allow notifications. Also, Self Service (or other apps listed in my notification config profile) appears in Settings/Notifications again. Notifications/badging worked fine then, including pushing messages to Self Service.
I repeated the process again after manually allowing notifications for those apps. I enabled the notification profile I built and you could see it grey out/disable editing settings/notifications for those specific apps, but the notifications/badging for those apps stopped again. So it seems this part of the profile configuration process is flat out broken.