Ok, it appears that with the new missions zip I can get into the enemy sweep. It looks like the server was reset though, and now I'm not getting any enemies in mission in neutral or enemy territory (tried neutral and Tholian space, but could only get an opponent in home/Romulan space). The missions just close down upon entering, but don't effect the DV of the hex (despite saying "mission complete").
Also I did get the tholian models to show up, but in one Enemy Sweep patrol, it looks like one may be missing a model because I couldn't see it (but I did another THolian ship) it was off screen as it got closer but when I turned to it, I got shot back to desktop as I did when I couldn't see any of the models and got close to them on screen. I don't remember the ship type, I'll have to try and hunt it down I guess.