The app that I've found very useful is FileBrowser, which describes itself as a network file access app, but also allows you to copy files to the iPad and use them from there. I've just been off on holiday with no connectivity, so beforehand I exported all the books I was interested in having from Calibre to a folder tree in the format I wanted, i.e. Epub's in Author/Series/Title.epub then copied the top-level folder (and contents) to the iPad. Then on holiday, I just 'FileBrowsed' to the local folder in the iPad and did 'Open In...' and sent the ePub to Sanza (or wherever) - Definitely worth a look!
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