I do have the output set to instrument, as that is the level I always need for my applications.
Lowering channel volume does remove squealing, but when I am sculpting a tone, sometimes you want the channel volume to be higher. But this squeal happens even when the channel volumes are reasonable, such as 7 or 8.
I am able to get this squeal even without using the Line Selector, that is, plugging in directly from guitar and then going right into my amp is not distorted or having heavy gain.
Thanks for the replies though.