Sorry about the confusion, the main reason I have found it difficult to research exactly what I am looking for is that I am finding it hard to articulate the problem.
I currently have a ‘loop-category.php’ file that I want to display posts from only the ‘news’ category (category 9 on the site), i have used <?php query_posts($query_string . ‘&cat=9’); ?> above <?php while ( have_posts() ) : the_post(); ?> so the category page only displays posts from the specified category, which works. But when you click on the post to view all of the information the navigation below the post (in loop-single.php) links you to posts that are outside of the category.