I've never used the "automated" remediation scripts either, by that I would mean "Automatically execute this script when a violation is found" option being selected. I think there would be very few instances where I would potentially use this feature.
If you meant that the Compliance remediation on its own is "automated", I'd personally say that Compliance scripts are better to use than "Configuration Templates". With Compliance scripting it only makes the changes to devices that need the changes to be done, and it figures out those for you. Configuration Templates execute on all devices you select, regardless of whether it needs it or not...