For other QNAP users - I have fixed this (temporarily) by updating ffmpeg on the QNAP.
Go to the AppCenter/QnapClub and install ffmpeg 4.3.0 from there. Follow the directions to link it into the path and restart Roon core.
I imagine this will not survive a reboot or a firmware update and it might break other things in QNAP so be prepared to re-link to the supplied ffmpeg.
Could Roon and/or QNAP fix this officially for us?
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