After you had mentioned before one of the guys put his stock wheels back on and didn't have an issue, I got to thinking about that. I am running an aftermarket 20x9 with the Toyo open Country AT2 295/65r20 tire. Toyo's site claims the tire is a 35" tire, but that is actually true when the tire is inflated to it's max 80psi and not mounted on a truck putting weight on it. The tire is actually a 34" tire when I measured at 42psi. I am using the Diablo Intuner to tune my gears and new tire height over the 31" stock tires. In the tuner i was actually inputting 34" in the tire size section to adjust the speedometer, odometer, etc. There is a section you can actually punch in 295/65r20, but that throws off the speedometer slightly as it thinks it is a true 35" tire.
So over the weekend I had my tires rotated and the alignment checked against the recommended Zone specs one more time. Everything was within 1/1000's of the specs so I know it isn't the alignment. Before I left the shop, I adjusted my tune and punched in 295/60/r20 (not 65 to bring it closer to 34") and drove it home. The truck did MUCH better on turns at intersections and in parking lots. It still has the stabilitrak kick on once in awhile but not like it was. So I am thinking the system is that sensitive and was looking for a stock width of about 8.5". These Toyo's are about 11" wide and without all the dimensions punched in, it was throwing it off. However, since it is still doing it occasionally, I am still going to need to talk to the Zone engineers. I just want to try and cover everything I can on my end so they can eliminate all they can.