Plex Hardware transcoding UPDATE?

The video (https://www.youtube.com/watch?v=nuIkV3ZCowE) walks through setting up the plex server on the zima board using Synology for the media storage. There seems to be one problem that should be fixed–or I missed. If your media is large enough it destroys the storage on the zima board by the plex meta data? I added just one of my small folders and the zima storage rapidly went to zero. Is there a way to “offload” whatever plex is trying to store locally on the zima so that the Synology is the true storage for everything?