Great plugin, I am using it to great effect, so, first off: thank you!
I know that you have probably moved on to other projects, as you mention a couple of times, but I haven't seen this question in the comments under the product page on your site, so I thought I would ask here.
Can you see any way to tie the encode and thumbnail generation functions to, say, an add_attachment action in functions.php or a new add-on plugin? Basically encode videos automagically. I am about to start working on this but thought I would ask first.