Jdeveloper 12c install via SCCM
Is there a way to fix that via a script or a way to stop SCCM from doing that?
Humm that's weird, I think the installer is rewriting the permissions not SCCM - SCCM doesn't do that sort of thing.
You should be able to script it, you can either use icacls (easy option) or use PowerShell (harder but native).
Icacls just works and is easy to find your way. PowerShell is super fidgety as you need to load the ACLS into an objext to apply to the folders, you can google that: http://www.tomsitpro.com/articles/powershell-manage-file-system-acl,2-837.html
You could get the ACL object from another folder and apply it the problem folder.