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I've recently been using org-mode (well, org markup) to mark up a few existing public domain books, and then using ox-epub to generate EPUB ebooks. It's been working well for me for the prose that I've been working with, and I've also tested HTML export to make sure it looks how I'd expect. It's a super simple workflow that generates results I'm very happy with.
I wrote my thesis with org mode and wrote about it here: https://write.as/dani/writing-a-phd-thesis-with-org-mode. Repo here: https://github.com/dangom/org-thesis
I developed and maintain an Emacs package to export from Org into the markup and structure expected by Leanpub: https://github.com/zzamboni/ox-leanpub. This what I use to write an publish most of my books (https://leanpub.com/u/zzamboni). It works great, I can write everything in Org, and additionally Leanpub is a great service, run by very competent and friendly people.