If you use mp3tofid+rsync to sync tunes (instead of emplode/jemplpode) you can just have your podcasts copied to your music directory on the host machine, then synced over to your empeg on a regular basis. But, I don't think the Cygwin port of mp3tofid is ready yet, so you'll have to have all your music on a Unix-like file server for this to work.