Hehe I hear you, I remember how confusing BC was for me at the very beginning so don't worry ;)
That orig hardpoint folder is most likely an original hardpoint which was modified, author put it there so you can choose between those two versions.
Again, you don't need that TGL at all to run this ship
You need to download Bridge Commander Universal Tool (BCUT), there is a very easy to use plugin creator, you'll just have to point it into a set of files concerning the NXrefit, I'll give you more details when you need them but first get that BCUT.