Well my problem was at the exact same spot as him. My only theory is that it has something to do with fighting the handmaidens and having the party stripped from you.
Edit: From scouring the internet, it seems that if you spar with the handmaidens before leaving, it blackscreen glitches. Can anyone figure out a way to make it unglitch, to set it right?
Edit 2: I may have found a work-around. Find a way to warp to somewhere that enables you to have a full party, then select a full party. Warp back to the academy, and enter the ebon hawk with all 3 of you. Worked for me.
Last edited by RedHawke; 09-13-2009 at 01:32 AM.
Reason: Combining triple post...