Are you using the kakumei template? Here is what I have in my front-page.php file:
<?php endforeach; endif; // $topics ?>
<?php bb_latest_topics_pages( array( ‘before’ => ‘<div class=”nav”>’, ‘after’ => ‘</div>’ ) ); ?>
<?php endif; // $topics or $super_stickies ?>
and have not had any issues.
Can you paste the html code generated for your links to provide more information?