I've got an issue imaging Surface Pro 3's as well. I hope you can help. After imaging and deploying several via SCCM 2012 R2, we've noticed now that they all won't Auto Rotate. They are stuck in Landscape. I have followed 1-5 on the this page:
http://www.microsoft.com/surface/en-us/support/hardware-and-drivers/troubleshoot-surface-touchscreen-rotation
When I run the troubleshooter (step 5), I receive a message that the "Accelerometer is reporting a screen orientation value of AR_DOCKED". And then it says "Not fixed".
It seems like the sensor is reporting that it is Docked even though it isn't. I'm using the January 2015 drivers. Any ideas how I can fix this in my image?