what makes the most sense is to do this:
set up your download directories in a way that mirrors what your eventual dir should look like.
for instance: you might have something like:
Video/TV/SD/
Video/TV/720p/
Video/Movies/
Video/Sports/
Music/
or maybe even soemthing like
Video/TV/Lost/
Video/TV/24/
Video/TV/Chuck/
Video/TV/House.MD/
then have your rss feeds set to download to this dir.
They will be labeled accordingly, then if you enable auto-move it will move them to the proper location.
If you find you need to manually change the "seed from" dir, you can use "DataDIR" plugin.
Otherwise, as novik says, you are free to modify the plugin any way you see fit. As it stands, it is perfect in my opinion.