I tried experimenting with the install a while ago, attempting to figure out a way around the baseitems.2da issue. It worked fine whenever the existing values in the baseitems file were modified. It started glitching out, however whenever another mod added something completely new to the file. For example, the mod "Bao-Dur's Charged Armor" adds an entry in the baseitems.2da for a new armor piece. When I tried to install Duplisaber over it, everything went horribly wrong. But before that, with just mods that changed existing values in the .2da file, it seemed to work fine. If I installed Duplisaber and then installed mods that added stuff to the baseitems.2da file, everything seemed to play fairly nicely.
It's been a while, and I didn't do any incredibly extensive experimentation with it, but the above is sort of what I determined. However, another issue that plagued me was that when I installed, everyone who got a lightsaber in cutscenes got the same hilt (I think the Acolyte hilt, if I remember correctly) and a green lightsaber blade. Not sure what that was about...
Hope that helps though. Not sure if you're aware of it, and if you are, oh well. But on the off-chance you aren't, there you go.