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My point was that you shouldn't do this on epub now as it isn't mature. A file format by itself without readers/creation software is not going to be much use. It might well happen that epub never takes off, and all your efforts will go to waste.
That said, I for one support epub and hope that it will mature, as I like open standards based formats.
Why not just use hyperlinks to footnotes instead of a popup? Granted DE doesn't have a back button at the moment, but I'm sure that will change in the future, if not in DE then in an opensource viewer. The problem with advanced CSS like popups is that it requires large HTML rendering engines to support it. THese in turn make it difficult to create a reader that will run in the constrained environment of a handheld.
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