One major thing that I would change in a Saga 2.0 is this: completely getting rid of condition track.
I know this idea will probably come as a shock to people, but there it is. As GM, I hate keeping track of the CT of all my NPC's. It's such a hassle. I have a hard enough time keeping track of everyone's Initiative order, hp, swift actions, reactions, DR, recover actions, damage threshold, Shield Rating, Force powers, once-per-encounter abilities, attack modifying feats & talents, defense-modifying feats & talents, Force points, second winds, and on and on, it never ends. It's incredibly overwhelming, especially when you have 8 or more NPC's, which means you have to keep track of 8 or more CT's, knowing where they are on the CT, modifying their penalites on every defense score, attack roll, and skill check, and keeping track of how many recover actions they have taken before moving up the CT. I also find it annoying to have to check the damage threshold every single time someone takes damage to see if it's exceeded. It slows down combat too much and it's not worth the benefits in my opinion.
The CT started out as something wonderful and elegant, a way to streamline things so that you don't have all the conditions like "stunned" or "frightened". But somehow it ended getting unwieldy and bulky, with so many things that got stacked on top of it like feats, talents, damage threshold, and so on.
Anyway, to make the changes, I would convert CT damage to hit points damage or re-introduce the ability score damage from D&D (for poisons). If that's not feasable, then get rid of the feat/talent completely. As for stun damage, I would just leave that as the same damage as regular damage, the only difference is that if you reduce your opponent to 0 hp, he is not in danger of dying.