So I took it for a drive tonight, and the shudder is back. It feels like the clutch isn't flat anymore or something. You don't really noticed it unless downshifting into 2nd, or taking off in 1st, when it shudders, and feels like the clutch isn't flat or something. You can feel it both in the way the car moves, and a little in the pedal..
I'm hoping that maybe if I drive it a bit it will suddenly fix itself..
