It seems strange that there are chapter notes and no links to them from the text. Can you open it with Kindle for PC or some other reader to check that they aren't there? I just tried the sample and I can see some links in the text to the footnotes. For example, I can see "3" after the sentence ending with "place back in the city." And "4" after "This offended Vimes to his shakily egalitarian core." The numbers are tiny and hard to see in Kindle for PC.
If they are there, it might be a problem with the conversion to epub. You can check the epub in the calibre viewer to see if it has them. Or using edit-books to check the code.
When this is sorted out, paola's suggestion to use the extended driver is a good one. The handling of footnotes in kepubs is much better than with epubs. If you don't want to stick to epubs, but try a lepubd for this, you can use the Kepub Output plugin to convert to kepub. The standard KoboTouch driver can send this to the device.
|