I am currently experiencing this problem. I have a the ReadyNAS DUO with RAIDiator 4.1.4 [1.00a042]. I feel like I have tried everything. Did either of you get this one figured out.
I have a health sized store of pictures, music, and videos. The scan of content directories seems to stop at random points depending on which content directory I have specified in the Twonky configuration screen.
Please post if you have figured this one out!