Thanks for the response. I did find this thread:
http://www.primothemes.com/forums/viewtopic.php?f=4&t=937&p=5853#p5853which lead me to editing wp-login.php. In the SI Captcha FAQ's it says this about issues with placement with regards to comments:
Your theme must have a <?php do_action('comment_form', $post->ID); ?> tag inside your comments.php form. Most themes do. The best place to locate the tag is before the comment textarea, you may want to move it if it is below the comment textarea. This tag is exactly where the captcha image and captcha code entry will display on the form, so move the line to before the comment textarea, uncheck the 'Comment Form Rearrange' box on the 'Captcha options' page, and the problem should be fixed. (WP3 with a WP3 theme will not have this problem)I thought this might help. Around line 475 is the following php statement:
<?php do_action('register_form'); ?> I tried moving this around to no avail but I am hoping I am at least starting down th right track.