Similar problem.
OS X 10.11.4
SU Pro 16
New Wacom Intuos Pro med.
Wireless space mouse - JFTR, works incredibly well with SU. Massive speed improvement for me in navigating 3D.

However finding Wacom really inaccurate for picking up points and moving. On small projects the move tool stutters and jerks around. Thought it was human error at first... tried every setting in Wacom config wasting several hours...

Picked up 2D outline of basement to move with Wacom - useless!!! Really wasting time and effort to place.

Put pen down - picked up mac mouse without de-selecting object. Object moved and snapped perfectly!!

Would appreciate any suggestions - close to boxing Wacom and send back for refund.

Thanks