WP-PageNavi gives me a 404 when using WP Query

This could be a plugin compatibility problem. Have you tried to disable all plugins and see if that solves the problem?

I found this which may also be of help:

http://dre.im/if-pages-return-a-404-after-wordpress-3-1-upgrade/

  1. Log in to wp-admin and go to permalinks, click save (this should refresh your permalinks).
  2. Check to see if this fixes your permalinks. If not, set to default.
  3. Disable your plugins to remove them out of the equation.
  4. Log into your server via sFTP/SSH/FTP and find your .htaccess file. It should be located in the root of your WordPress install.
  5. Pull the htaccess file down so that you have a local back up. Once you’ve pulled it down, go ahead and delete it from your server.
  6. Go back to wp-admin and visit your permalinks page. try enabling custom permalinks.
    This should remedy the issue and you can go ahead and reenable your plugins.

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