Tom,
Finally getting back to this after the new year. I think I still may have an issue with my calculations.
Lead Screw 10mm (.394")
Motor step angle - 1.8
Steps/Rotation - 3200
Direct drive
Calculated Steps/IN - 8128
I have the following data in the step response screen:

From what I understand from your explanation we would have the following values:
- Velocity - 85,000 / 8,128 = 10.45 IN/Sec
- Acceleration - 8,000,000,000 / 8,125 = 984,252 IN/Sec^2
- Jerk - 30,000,000 / 8,125 = 3690
The velocity seems reasonable to me. That comes out to 627 in/min, however the acceleration is greater than 2,500 G's. Doesnt that seem very extreme? I was expecting a value in the 3-5 G range?
Based off of your comments on the ratio of acceleration to jerk. Maybe because Jerk is lower than acceleration, the jerk parameter is controlling motion rather than velocity? Or maybe my math is wrong?
I set all of these parameters through trial and error - watching position error on the encoders. Is there a best practice on how to set these parameters?
Thanks!
Scott