If you have both servers online, you can use iiscnfg to copy complete metabase from one server to another with all necessary translations. With this command you will have to supply account/password pairs for both server's admin accounts. Only thing left is to copy files to exactly same locations...
Have you tried to edit BKS file manually? I think you can enter something like this in BKS file
\\COMPUTER1\\C$
\\COMPUTER2\\C$
\\COMPUTER3\\C$
\\COMPUTER4\\C$
...
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