I think that most of the people here will recommend Calibre to manage your library and convert and send the books to your Kindle. IMHO, you get the best effort/quality ratio with converting to AZW3 - almost effortless and good quality - but you still have to transfer the books via cable. Converting to MOBI lets you use the "send by mail" Amazon functionality without the need to use a cable, but you lose some quality. The best quality, including Enhanced typesetting you get with KFX format, but it needs more effort - to install Kindle previewer and KFX plugin (kudos to jhowell!) - and then not every book will convert successfully and you have to fall back to AZW3. For me, it is worth the effort.
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