I'm using the center between gullets on a 24t ripping blade. There are many methods on how to align the blade, but the one I followed after not getting any success with the SawStop manual was to mark one area 1/4" away from the edge of the blade and get all the measurements from the front to back with that spot. So I zeroed the measurement out at the front, rotated the blade to the back and took my measurements for making any blade adjustments. I hope that makes sense...
What have you done to your stock before ripping it? Are these stock flat, even thickness and straight before you take it to the saw? Any twist, cup and bow is likely to leave an undesirable quality of the cut. Secondly... oftentimes when cutting wood, especially when ripping, you relieve the stresses within the wood and it would have the tendency to bow and twist. Finally.....you mentioned resaw. If you are resawing wood, cupping is very common.
Because I don't have a jointer, I made a jointing jig out of 3/4" plywood and the jig is flat. This way I can send the piece with some shims under to flatten one side of the board. I've taken all the variables out from the wood to avoid inaccuracies. It boils down to either I'm missing something in properly setting up the machine or it could be technique that is lacking. I'm taking all precautions to keep the board tight on the fence when feeding so I have no idea what's going on.
Thinking of investing in a Gripper if it helps...
Silly question but is your square accurate?
(Somehow the quote function left out that this is referring to use of thin kerf blades on a Sawstop.
Sawstop does recommend that you not use super thin kerf blades. But a normal 10" thin kerf blade is 3/32", and the manual says:
"Blades with kerfs much thinner than 3/32 inch should not be used because those blades might not be strong enough to withstand the force applied by the brake when it activates."
(My italics added.) Ordinary thin kerf blades are fine on a Sawstop.
With regard to the OP's problem, could it be you are so careful to keep the stock against the fence you are pushing hard enough to deflect the fence? Pushing too fast for the cut might also cause blade deflection. Try cutting a bit more slowly, while focusing on moving the stock steadily along the fence without pushing too hard against it.