Hey all, I've just made lots of changes to my manga converter:
http://code.google.com/p/kindlemanga
It'll process rar / zip / cbr / cbz files into folders to be put on the kindle (no extra ability to convert to DX resolution yet).
kindlemanga will attempt to populate the series/title, volume number, and chapter number from the archive filename and/or directory name. If it gets the series name wrong, you can just highlight all the volumes / chapters you want to retitle, and rename them in the Series Name field. Simple enough, and no need to organize your files!
The output folder names will look something like this (from the conversion in the screenshot below):
Lucky_Star-vol.001-ch.001
Please let me know how it is, it's the first app that might actually be useful for people
Download here!