I have two WP installs on the same server, filters only apply to fist install

Like the subject says. I suspect the fix for this is very simple. To make my cron command update the second feedwordpress thingy I had to change the number from 1 to 2. Is there something I can do? The filters I set up on my second install are being applied to my first install, and the second install is going unfiltered.

http://wordpress.org/extend/plugins/ada-feedwordpress-keyword-filters/