Indeed, I loved the whole idea of the Sith, both species and ideology, beginning as something close to the Echani: evolution through conflict. Indeed, the idea that the Sith actually weaken themselves through backstabbing and betrayal is very accurate. What I think this teaches is that seeking power is not evil (as the Jedi seek power in the Force as well), it's the means that one ultimately acquires that power. Imagine what would have happened if Akirakon Sin hadn't been betrayed and went on to expand the Sith Empire: you'd have the polar opposite of the Infinite Empire and the Mandalorian Neo-Crusaders, a benevolent monarchy that helps people evolve through conflict. It would have been endlessly superior to the Galactic Republic, even if it might be a bit strict.
When you start to look at the Sith without their constant need to betray each other at every opportunity or kill off their weaker member, they can no longer be considered evil any more since it's betrayal and lack of mercy that makes them evil, not the fact that they utilize their emotions and it's certainly not that they wear black or carry red lightsabers. One should not be judged by one's race, creed, or appearance, but by one's actions.
Overall, Silveredge9, you handled the philosophical element of this mod PERFECTLY. It's very crucial that you did so since every decent work of fiction needs to have a decent philosophical element behind it or even the least philosophically-inclined will begin to take issue with it.
In order to balance out praise with criticism: Why are you assigning Dark Side points for activating the ancient Rakata defenses in the last mission of the Professional? I'm not sure why it is wrong to let an ancient security force do its job, or for that matter letting the relics of an ancient Dark Side empire fight members of a modern Dark Side empire. Nor is it particularly dishonest or sneaky either. But that's all IMO.
Again, this mod is 20/10.