The next version of Kotor Tool will feature the ability to display maps for modules that have cutscene "stages" in their 3D model which could not be practically edited in prior versions. Below are some screen shots showing this in action:
 

Peragus - exterior - Small map (broad overview)
 

 

Peragus - exterior - Large map (high detail)
 

 

Peragus - possible cutscene stage- Alternate map