I just had the same thing happen. I installed this plugin to compare it to the built-in Top Posts & Pages widget, and all of my top posts links were immediately hijacked. Fortunately deleting the plugin and clearing the cache seems to have fixed it.
I’ve run into the same thing. I’m on Dreamhost shared hosting.
WordPress version: 3.4
Wordpress SEO version: 1.2.2
Theme: Bouquet from Automattic
I did this: deselected the check box for ‘Use Meta Keywords Tag?’
I expected the plugin to do this: be deactivated
Instead it did this: box remains checked after save & refresh