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Most important would be the log files when the problems occur.
Best case, if you could create two pairs of log files and the configs, to be able to compare the good settings and logs with the bad ones. But the logs are overwritten on every new start of WinUAE. Don't change the settings while WinUAE is running, start it twice with different settings directly from Windows (no internal restart). Save the log files each time after shutting down WinUAE.
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