VGT actuator install and calibration non OEM tune

[Joesixpack]

Can you still do an VGT actuator install and calibrate on a engine that has a non-oem tune? Truck was purchased this way. It had a 3316 active code so we thought we would see if we could get to the bottom of it. Can't get past the install actuator step and insite reports the installation procedure has failed. The actuator does not try to move during the process.
Now it has an active 2449 active code actuator not calibrated. ECM code AV10040.39

Truck had no cel light on, acted normal except I don't think there was any actual VGT ring movement, by listening to it you would have never known it had a VGT. No noticeable turbo speed changes during idling or what you could perceive running around the yard ect.

When I removed the actuator to have a look the arm was positioned right over the hole. Turbo has been replaced recently, arm moves very smooth, not stuck. Actuator still has red paint and I would assume is original.

Truck needs to go to work monday....LOL! Tried restoring the ecm image thinking maybe the cal would copy over and no dice there thinking I could get back to where I was.

Any idea's?