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You may already realize this - the Google backlinks function only ever shows a small sample of what you actually have. Nevertheless, this is a pretty extreme case.
There's not much you can do as far as I know, and there's just no figuring which links Google will and won't show. You need to have faith that Google sees a lot more links than it will report and just get on with the show. The name of the game is getting on the search results and getting traffic. The rest of it (toolbar PR, backlinks and so on) is very indirect indicator of your site's "health" and not directly important, in my view,
joined:July 19, 2002