I've mentioned before that KOTOR II is my favorite game of all time, and in the running for my favorite thing ever produced by a sentient creature. So it should come as no surprise that, if it were up to me, I would hand the fate of the series over to the creative team that made the most of it.
But a couple of things muddle the mixture. First of all, I will freely admit that KOTOR II does almost nothing to improve the original from a strictly mechanical perspective; by modern standards, it's nothing more than an adequate turn based RPG, and the few places where the game fumbles it's narrative arise due to the utterly idiotic morality system.
The real problem is that the game seems to sometimes just... assume extremism on the part of the player, despite the fact that the story devote so much time to arguing against that kind of behavior, so you get situations where your only available responses are to act like a raging psychopath or otherwise be a fucking doormat!
Obsidian and Bioware are two sides of a coin; the inversions of each other. Bioware are so concerned with technical perfection and efficiency that they seem to have forgotten how to take any artistic risks. With Inquisition, they practically flushed a complex, challenging story down the toilet in favor of putting a new coat of paint on The Hero's Journey AGAIN!
Obsidian regularly ship their games in a state of total disrepair, because they pay so little attention to the mechanical aspects of game design, in favor of focusing entirely on the ethereal, emotional aspect of the art. They're like a brilliant sculptor who works exclusively with cheap plastic.
I might be more eager to hand the next Star Wars game over to an eccentric artist who might muck up the gameplay if we weren't in the midst of an absolute DROUGHT of lightsaber combat action games. I am seriously tempted to choose Bioware, despite the fact that I'm almost sure they would take the absolute worst direction possible for one of gaming's all time great stories, because of the kid in me who used to always play around with sticks pretending they were lightsabers.
But at the end of the day, I care more about KOTOR as a story than I do as a toy, so yes, I would choose Obsidian. In an ideal world, I would just bring in Chris Avelone to handle the story and let Bioware design the game mechanics.