Hi,
Have you check the following log file to start future troubleshooting?
DMPuploader.log: Records details for uploading database changes to Windows Intune
DMPdownloader.log: Records details on downloads from Windows Intune
CertMgr.log: Records certificate and proxy account information
outgoingcontentmanager.log: the packege is successfully copied to manage.Microsoft.com.
For more information, see the following blog
http://scug.be/sccm/category/ipa/
http://scug.be/sccm/2014/03/18/cm12-and-intune-deploying-windows-ipa-ios-applications-requires-a-plist-file/
https://blog.hosebei.ch/2014/04/15/sccm-2012-r2-mdm-deploy-an-apple-ipa-file-to-an-ios-device-the-complete-guide/
Best Regards,
Lorry
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