Please provide more detail: Where do you save web pages to? How do you run the indexer (by dropping or by selecting a folder or a file)? Which is the folder you pick to index? What is the output of the indexer?

Update:
Do you see a list of your captured pages when you open tree/frame.html or tree/map.html? If yes, the indexing seems successful. Just note that the zip only contains the "list" part, and you need to extract them into your ScrapBook folder (so that your ScrapBook folder has data/, tree/, etc.), or each link to the page will show nothing.