Since Opus stores its configuration as files, if you want to automate backup or restore you can just copy the appropriate directories. They're listed in this FAQ:
[How to backup or locate your Opus configuration (Simple))
You should obviously tell Opus to exit before copying over the configuration. You can do that from a batch file (or whatever you're using) by running:
"C:\Program Files\GPSoftware\Directory Opus\dopusrt.exe" /CMD Close PROGRAM