If you look at the link structure within the main job list for categories, it is different than viewing categories in the counter module. This means that we are creating two different pages with the same exact content, which is bad for SEO. To fix, I opened up mod_jajobs_counter/tmpl/default.php
Find the following line:
<li style="padding-bottom:5px;"> <?php if( isset($item->space)) echo $item->space;?><a href="<?php echo JRoute::_('index.php?option=com_jajobboard&view=jajobs&layout=filter_job_list&Itemid='.$Itemid.'&'.$item->field.'='.$item->value.'&'.$item->field.'_alias='.$item->text)?>"><?php echo $item->text?></a><?php if($show_counter){?> (<?php echo $item->num;?>) <?php }?></li>
And change to:
<li style="padding-bottom:5px;"> <?php if( isset($item->space)) echo $item->space;?><a href="<?php echo JRoute::_('index.php?option=com_jajobboard&view=jajobs&layout=filter_job_list&Itemid='.$Itemid.'&'.$item->field.'_alias='.$item->text.'&'.$item->field.'='.$item->value)?>"><?php echo $item->text?></a><?php if($show_counter){?> (<?php echo $item->num;?>) <?php }?></li>