Hmm, just looking at your question and your needs, why does this need to run as root, it is running the the first time they log in. If you are having the user log in via a web form (as it looks from above), can't you snag their password and have the script run as them? Isn't there a way of doing this rather than running the script as root? I don't know, maybe I'm way off base, but to me that would be a little better than just blindly running the script as root.
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