You have done all the appropriate troubleshooting. It's the scanner. Obviously it's not playing nice with the Z ecu.
Scanner plugged in = problem
Scanner not plugged in = no problem.
Get a different one. I use torque app as well with a $17 ebay Bluetooth plug in. No problems
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PW 07 HR350Z R.I.P. Totaled by 82yr old woman 
2010 40th Anniversary 370Z
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