Yeah, I'm afraid there are a number of bugs with this mod. We're hoping the devs do another release. I was on the forum recently and there was some indication that they will do something once the "expansion" is done, whatever that means. It has been quite a while since anything was done with this. Too bad, because the end results are amazing.
Anyway, this is what I did. Warning: it's rather tedious. Open the console and do the following:
- get the Ref ID of the npc (I believe these are listed in the wiki for the npc in question)
- prid Ref ID
- moveto player, x, y, z -- I used moveto player, 512, 0, 0 from inside the city. This moved the npc 512 units behind me. As soon as I brought them inside, they ran off to their shops and continued on! It was rather funny actually
So, for example, for Batul gra-Sharab:
prid 2ecb4
moveto player, 512, 0, 0
Type these commands into the console from inside Kvatch and Batul will materialize behind you and run off to her brand new shop, ready for business...