Random Dead Page Links

I recently took on an abandoned project from a "reputable" developer. The template and CSS was developed for the site, but never populated with content . The owner of the site recently sent me the source code and after installing it on my test server, I started running into some issues.

I have done numerous searches in the forums for this issue, but have yet to find a solution. What is happening is similar to what alot of Drupal migrations encounter. The front page of the site is up and displaying properly, but when I click on the Primary Links, it redirects in a strange way. Now first let me mention, the site is hosted in a sub-folder at testserver.mywebsite.com/kimbooker, and i have adjusted the .htaccess file to reflect that (I will post it below). The strange thing is that the secondary links work and redirect fine, as well as some of the test blog posts. Here is what is happening.

On homepage of site : testserver.mywebsite.com/kimbooker

Click on primary page link and browser redirects to: testserver.mywebsite.com/primarylinkname

What SHOULD happen is browser redirect to: testserver.mywebsite.com/kimbooker/primarylinkname

Once again, I have changed the .htaccess file to reflect the subfolder location, but still with no success. The secondary links ARE working correctly however, and the primary pages will work if I correctly key in the URL by hand.

Anyone have any suggestions as to whats going on?

# Various rewrite rules.

RewriteEngine on

# If your site can be accessed both with and without the 'www.' prefix, you
# can use one of the following settings to redirect users to your preferred
# URL, either WITH or WITHOUT the 'www.' prefix. Choose ONLY one option:
#
# To redirect all users to access the site WITH the 'www.' prefix,
# (http://example.com/... will be redirected to http://www.example.com/...)
# adapt and uncomment the following:
#RewriteCond %{HTTP_HOST} ^example\.com$ [NC]
#RewriteRule ^(.*)$ http://www.example.com/$1 [L,R=301]
#
# To redirect all users to access the site WITHOUT the 'www.' prefix,
# (http://www.example.com/... will be redirected to http://example.com/...)
# uncomment and adapt the following:
# RewriteCond %{HTTP_HOST} ^www\.example\.com$ [NC]
# RewriteRule ^(.*)$ http://example.com/$1 [L,R=301]

# Modify the RewriteBase if you are using Drupal in a subdirectory or in a
# VirtualDocumentRoot and the rewrite rules are not working properly.
# For example if your site is at http://example.com/drupal uncomment and
# modify the following line:
RewriteBase /kimbooker

# If your site is running in a VirtualDocumentRoot at http://example.com/,
# uncomment the following line:
# RewriteBase /

# Rewrite URLs of the form 'x' to the form 'index.php?q=x'.
RewriteCond %{REQUEST_FILENAME} !-f
RewriteCond %{REQUEST_FILENAME} !-d
RewriteCond %{REQUEST_URI} !=/favicon.ico
RewriteRule ^(.*)$ index.php?q=$1 [L,QSA]

# $Id: .htaccess,v 1.90.2.3 2008/12/10 20:04:08 goba Exp $