USTR is going to use every shred of leverage they have in these negotiations, and as things stand, that includes Europe's desire to have the proceedings opened up. In other words, they don't really care so much about openness (otherwise they'd have taken a harder line against it), but they will trade it for a better position. I think things should be more open already, but given the current reality, this makes a lot of sense for the USTR.
We know they're bad because they're unknown. If there would be no significant protest, mostly passive buy-in, then there'd be no reason to keep it secret.