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Currently, the code is pretty broken for your use case, but there is a patch at http://code.google.com/p/sagenb/issues/detail?id=38 which should fix the issue for you.

Also, there is another major bug in that code: if you restart the server, then anyone who's registered but not confirmed will not be able to confirm. I believe that code got in before there was a review process. This will be fixed (at the latest) when the new Flask-based version of the notebook is released.