We're working on our first Salesforce package, and recently switched from creating Beta packages to a Managed Package.
For some reason, the permission set that we're pushing loses the entry in Assigned Apps and I have no idea why. Our custom tabs and objects come through just fine. The App is installed as part of the package, and is visible to System Administrators. I can create a new permission set on our Test Org that includes the package.
Early on in our testing and development, when we were pushing unmanaged or beta packages, I could have sworn that I saw this working correctly.
Am I missing some sort of overriding permissions issue, that prevents our Permission Set from granting access to our Application?