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There is a v6.1.0 available on the web at this time. I am not sure if it will address this issue, but please give it a try.
It might be an issue with the unit sync up to your signal when switching back and forth it is re-locking up to your source and it is just having a difficulties with a non-standard source or perhaps the units are starting to have problems with some signals. You may wish to run some stress test patterns on the units.
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