But then while I was looking at the logs, and about 10 minutes had passed, the center & LFE returned.
So it's not related to Windows, and happens randomly. I still think that DAC buffer size is wrong, or not initialized at all.
Linux driver issue is my bet. Here is a link for a bug report: https://www.alsa-project.org/wiki/Mailing-lists
I was hoping your AVR shows sampling rate etc., just hearing isn't enough to estimate data rate differences. However, since we know that it's not Windows-related, it doesn't matter.
If the log becomes too large, upload by pastekodi doesn't work anymore. Then you can only copy & paste from /storage/.kodi/temp.