Lost all Media files for Multisite sub-domain blogs


I could really use some help here. I loaded a plugin "brightcove-video-cloud" into my wordpress multisite. Immediately after activating I was unable to login to any of my sites admin areas("you do not have sufficient permissions to access...").

I deleted the plugin through ftp and was able to get back in to admin, but all my subdomain media files are completely gone. Broken links on all files.

Does anyone have any input on how I can do to fix this for my clients?