I am currently having google webmaster errors caused by ? being replaced with %3F and = being replaced with %3D. I searched the forum to find this previous thread and answer
The code is superb and works very well, however it does seem to have a drastic effect on my website speed. It increases the page load times by an additional 5-6 seconds. My site run on a dedicated physical server and I usually have excellent performance for the site.
Is there anything that shed more light on this? Do you want me to post my entire htaccess file to help you diagnose?