Originally Posted by kovidgoyal
The reason I'm asking is that storing ebooks in unpacked form is good if you tend to edit them a lot. However, most users dont do that, so from a user perspective its better to store them in EPUB so that you have a one file per book storage paradigm.
And if you're expecting MOBI to evolve, I suspect you will be disappointed. It looks like MOBI is too open for Amazon.
Hm, I personally use a folder tree storage paradigm, but I can certainly add one-pass conversion to the next release. I'll add it to the TODO list.
As to Mobipocket, I received a certain amount of encouragement on their forum when I mentioned a related issue to them.