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Remote desktop logins can take much longer than usual when ArcGIS Server is running on Windows Server 2012 and 2012 R2. The login period can take anywhere from half a minute to several minutes.
ArcGIS Server runs many processes as a service (ArcSOCs), and these processes trigger a defect in Microsoft Windows 2012 R2.
The issue does not occur in Microsoft Windows 2008 R2 and has been addressed in Windows Server 2016. To avoid this issue, consider using one of these alternative versions of Windows, if supported for your version of ArcGIS Server.