The only issue so far is with the TitanTV app, which is a TV show listing guide, will not load any data on the iPad Mini 2 running iOS 9.3. This app is working fine on my iPad Pro and iPhone 6+ which are still running 9.2. Other than that I haven't noticed any other issues. But I haven't had a lot of time to spend with the Mini today.

The iCloud settings have moved. Under settings menu there is a profile setting, and iCloud is now under that menu.