You have to format fonts within InDesign (as CSS in html) and create a different document for each chapter.
I realize all that plus a number of other things you've not mentioned from consolidating Adobe TV videos, Gabriel Powell's videos, articles, white papers, how-to's, etc. What I want to see are some samples of various CSS style outputs to see how well formatting can be controlled with regard to indents, justifications, paragaraph spacing, etc.
I have transferred some personal projects and looks as any other ebook sold in the store. I hope to publish a few in the iBookstore.
I only wish to create a personal library of about 1,000 custom formatted public domain ePub volumes over the next decade. I simply do not like the way others have formatted theirs and do not want extraneous material (like Project Getenberg's license and/or list of typographical corrections) included in my files.