When you want to Support Mobile Devices with System Center 2012 Configuration Manager SP1, you will set up an Intune Connection. For User authentication, you have several Options:
1. Manually create users in your Intune subscription and manage their Passwords
2. Configure synchronization between you Inhouse Active Directory and the Azure AD for User Account, Passwords has still to be handled in Intune manually
3. Synchronize User Account as in 2 and use ADFS for User authentication, no Password handling necessary
Those 3 Options still exist, but on the third of June, Microsoft released an Update to Azure Active Directory Dirsync which allows you to connect your On-Premise Active Directory with the Azure AD including Password Synchronization. There is no ADFS needed, if you don’t want to.
Look at this excellent Blog Post: http://blogs.technet.com/b/educloud/archive/2013/06/03/new-azure-active-directory-sync-tool-with-password-sync-is-now-available.aspx