Apple - Ripping a whole website to PDF

It doesn’t do “whole websites” because it would be hard for it to know “how deep” (tho I agree it could be configured in a way of: go down XX levels), but in any case, if your HTML pages contain a full chapter and assuming the books have about 20-30 chapters, is not that “bad”.

With that in mind, I have an inexpensive application that does this job, and it’s called Web Snapper.

What's so special about Web Snapper?

Web Snapper is drag and drop simple. When you want to grab a page, you drag the URL and drop it onto the drop zone in Web Snapper (or the app icon in the dock) – it really could't be any simpler. With the 'Snapper, you can save pages as scalable/vector PDFs (we even preserve the links!), or in any of the image formats that are supported by MacOS X. If you want to make a multi-page PDF - simply drag and drop multiple URLs and then click the "Save to Multipage PDF".

It may help you because the price tag is $15.