Intel VAAPI howto with Leia v18 nightly based on Ubuntu 18.04 server
Thank you for your reply.

I rebooted the device with the addon disabled and started a 24p MKV movie.

For some kind of reason kodi was reproducibly not starting the movie at a 24 Hz refresh but at a 50 Hz refresh. I manually ran xrandr once via ssh, which apparently triggered the detection of the other supported modes (http://paste.ubuntu.com/13562377/) with kodi already running. After that kodi changed to 24 Hz with no problems.

For this movie, the error did not occur - sync was fine until the end. I will try to obtain a log next time the sync problem is happing - the log is still attached for the mode change issue.

The computer running kodi is running 24/7. I wonder, if the sync errors might happen due to the TV being switched off and on repeatedly in between watching videos?

kodi log:
http://paste.ubuntu.com/13565156/
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Intel VAAPI howto with Leia v18 nightly based on Ubuntu 18.04 server18