I figured out why my URLs were not re-written internally. It looks like I somehow missed some installation instructions. Most likely this is because the read-me with the file is dependant on external links, and somehow I didn't end up on the right link/ or didn't get the right information.
So if you are re-directing to the right page, with simple SEO url like me, but internal links were not re-written, the answer is here:
SSU Installation Instructions
Code:
global $request_type, $session_started, $http_domain, $https_domain;
Code:
//bof simple seo url
global $ssu;
if(is_object($ssu) && ($link = $ssu->ssu_link($page, $parameters, $connection, $add_session_id, $search_engine_safe, $static, $use_dir_ws_catalog))!= false) return $link;
//eof simple seo url
Also, make sure you edit the RIGHT html_output.php file, this one:
/includes/functions/html_output.php
Of course, don't bother changing the admin panel version of html_output.php (we don't want redirects in there).
I hope that helps anyone that had the same issue as me.
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