@everaejo
As Mario already said, you only should change the default value of $config['cops_x_accel_redirect'] if you're sure that your webserver can use it. I don't know if X-SendFile is enabled on Qnap so please remove this line from your config-local.php and it should work fine.
$config['calibre_internal_directory'] should only be set if you're using Nginx as a webserver.
@jeremydouglass
Next version of COPS will enable multiple database, try to wait a few days and it should be easier for you to use.
About the performance issues, there is really no problem here, I have 4 COPS running on my server without any issue.
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