Just had this occur again, and sudo modprobe -r wacom && sudo modprobe wacom fixed it.
I am experiencing a similar issue with my Thinkpad X1 Yoga (1st Gen). After some time of using touchscreen and pen together, the touchscreen randomly stops reacting to dragging. I recorded a log from xinput test-xi2, you can see toward the end that no more RawTouchUpdate events appear. I then ran evemu-record and it still seems to get position updates. Logging out and back in fixes the problem.