All the classes have 1/1 BAB in KotOR 2. Consulars, Scoundrels, droids. If you think that makes Guardians weak (or not far stronger than both the other Jedi classes), well, that's a point of view.

I thought Yora was saying she finds it insufficiently spelled out why Malak's a threat when she's on Dantooine. By the end of the game, it's clear that the Star Forge is effectively giving him an unlimited number of ships and combat droids comparable to the best the Republic has to match them; unless it's taken away from him his conquest of the galaxy is a "when," not an "if."