The manual is incorrect on that detail. We'll correct that the next time it is re-built.
To preserve your Favorites, you would need to preserve these two files, under /dopusdata\Config Files:
[ul][li]favorites.ofv (the main favorites list)[/li]
[li]smartfav.osf (can be ignored if you do not use Smart Favorites)[/li][/ul]
That could be done by one of:
[ul][li]Copying the files out before restoring the config backup, then copying them back afterwards. (if you backup and restore often, you can automate the three steps.)
[/li]
[li]Removing the files from the backup archives (which can be renamed to .zip and modified, then renamed back to .ocb). Then, when you restore the backup the files will be left as they are. (Of course, this will not work if you choose Replace existing configuration completely when restoring the backup, since that will still erase your whole config before restoring the backup.)
[/li]
[li]Not using the backup & restore wizard at all, and manually copying only the files you want to share between machines, avoiding those you don't. All the config is stored in files so it is easily copied. This should be done after fully exiting Opus (via File / Exit Directory Opus).[/li][/ul]