Thanks for the clarification. I do have the metadata setting ticked. And I think I have sorted the HDR issue. I have the OS set to use HDR, so I think when a new source also has HDR the logo doesn't pop up again. I confirmed this by turning off my tvs HDR capability while playing the file. When I then turned it back on while playing the logo popped up.
Is there a way to use RO Standard settings but pass through HDR? The video seems to stutter a bit with the other HQ settings enabled. Not sure if the graphics on my NUC are powerful enough for all the MadVR settings.
Also still have the issue of bitstreaming the DTS-HD audio. What could be the issue with that? I enabled logging, and while the logs were mostly gibberish I could see that JRiver was correctly recognizing the DTS-HD track. I'm also able to bitstream the two lower resolution commentary tracks.
Thanks again for any suggestions.