To have more insight, under the Advanced settings of the Terminal Settings, place a check box on the Status Reporting for each SMU.
This will put a new column in the sheet. When you hover or dwell the mouse cursor on that column of data, the tool tip window will decode the status info.
In particular, knowing which current measure range is in use could be helpful.
What settings for current measure range do you use? Limited auto?
The level of current is quite small, so more settling time might help too. Try adding some Sweep Delay.
Or try using smaller dV/dt step sizes on the gate voltage sweep (more points).
If you have the 8101-PIV and the 1GΩ sample resistor, you could compare the current measure of the two SMU.
Use two terminal device and force a small voltage with one SMU while other forces 0V and measures the arriving current.
In Clarius, under the Tools icon in the ribbon, run the SMU Auto Calibration to see if this helps.
When was last time system went to calibration lab/service center?