If it is stuck indexing some books, it is possible that those books are corrupt in some way. It is always better to load books a few at a time, because the Kindle can finish indexing them better than having to try and index hundreds at one time, and because if it is still stuck, you can more easily find which book or books are causing the problem. Any books you can legitimately on CD are easily downloaded from other sources (public domain books). You might try getting the books you want from reputable sources, like here on mobileread.
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