If you have two similar AVRs from the same manufacturer, and the speakers sound completely different, then it's the AVR at fault.
You should only put in the main left/right pair for any testing. Even one speaker may be enough.
Of course, if you are using the bass module, then that could be the thing that is screwing everything up. But, that would still be consistent among both receivers.
If it's only the one receiver, then it's likely the one receiver. Definitely reset it though. Also, if you can find a standard 8ohm speaker, then you should try that as well.