URL pattern in Category

Hi! I have been working on upgrading one of my sites from Perch 2 to Runway. I've updated to Runway on a staging site and imported all the stories from the region they previously were in to a a collection. Everything seems to be working great at this point, except that I am running into an issue in that the URL pattern changes incorrectly when jumping from page to page within a category.

It's a local news website with different categories. So for example, when I go to the church category, the URL is /aprunway17/category.php?cat=news/church/. What I want to happen when I click on the "Next" link is for "&page=2" to be added to the end of the URL. What actually happens is "/aprunway17/&page=2." I have looked everywhere I can think of to find the solution to this and tried everything I've found, and I'm stuck. What really baffles me is that I copied these pages and templates exactly from the live site that is currently running Perch 2 and it works as it should there.

I'm sure I am missing something so easy .... or at least I hope that is the case. Any help would be much appreciated!

Here is the relevant portion of category.php:

<?php    
perch_category(perch_get('cat'), array(
        'template' => 'category_single.html'
    ));
        ?>
            <br>
<?php

 perch_collection('Stories', array(
        'category' => perch_get('cat'),
    'sort' => 'postDateTime',
    'sort-order' => 'DESC',
    'template' => 'story_listing.html',
        'filter' => 'hide',
        'match' => 'neq',
        'value' => true,
    'paginate'=>true,
       'count'=>10
    ));


    ?>

Here is category_single.html:

<h1><perch:category id="catTitle" type="smarttext" label="title" required="true" /></h1>

<perch:category id="desc" type="textarea" label="Description" editor="markitup" html="true" markdown="true" size="s" />

    <perch:category id="catSlug" type="slug" for="catTitle" suppress="true" />

<perch:after>

       <perch:if exists="paging">
  <div class="paging">

    <perch:if exists="not_first_page">
      <a href="<perch:content id="prev_url" type="hidden" encode="false" />">PreviousPage</a>&nbsp;&nbsp;
    </perch:if> 
    Page <perch:content id="current_page" type="hidden" /> of <perch:content id="number_of_pages" type="hidden" />
    <perch:content id="page_links" encode="false" type="hidden" />
    <perch:if exists="not_last_page">
      &nbsp;&nbsp;<a href="<perch:content id="next_url" type="hidden" encode="false" />">NextPage</a>
    </perch:if>
  </div>
</perch:if>





</perch:after>

Here is story_listing.html:

<perch:before>
</perch:before>

   <perch:if exists="featuredimage">
<img src="<perch:content id="featuredimage" type="image" label="Featured Image" suppress="false" />" width="300" class="img-responsive" />
</perch:if>

   <perch:if exists="listimage">
<img src="<perch:content id="listimage" type="image" label="Gallery image for listing page" suppress="false" />"  width="300" class="img-responsive" />
</perch:if>

<h3><a href="detail.php?s=<perch:content id="slug" type="slug" />"><perch:content id="title" type="text" label="Title" required="true" title="true" /></a></h3>

<perch:content id="excerpt" type="textarea" label="Excerpt" markdown="true" html="true" editor="markitup" /><br>


<a href="detail.php?s=<perch:content id="slug" type="slug" />"><button type="button" class="btn btn-lg btn-default">Read More</button></a>

<br>
<br>




<perch:after><br>
<br>

 <perch:if exists="paging">
  <div class="paging">

    <perch:if exists="not_first_page">
      <a href="<perch:content id="prev_url" type="hidden" encode="false" />">Previous</a>&nbsp;&nbsp;
    </perch:if> 
    Page <perch:content id="current_page" type="hidden" /> of <perch:content id="number_of_pages" type="hidden" />
    <perch:content id="page_links" encode="false" type="hidden" />
    <perch:if exists="not_last_page">
      &nbsp;&nbsp;<a href="<perch:content id="next_url" type="hidden" encode="false" />">Next</a>
    </perch:if>
  </div>
</perch:if>
</perch:after>

Here is my diagnostic report:

Perch Runway: 3.0.8, PHP: 5.4.45, MySQL: 5.6.35, with PDO
Server OS: Linux, cgi-fcgi
Installed apps: content (3.0.8), assets (3.0.8), categories (3.0.8), perch_events (1.9.3), perch_comments (1.2), perch_backup (1.2), perch_mailchimp (3.0.1)
App runtimes: <?php $apps_list = array( 'perch_comments', 'perch_events', 'perch_mailchimp', );
PERCH_LOGINPATH: /aprunway17/perch
PERCH_PATH: /home/jstahr99/public_html/aprunway17/perch
PERCH_CORE: /home/jstahr99/public_html/aprunway17/perch/core
PERCH_RESFILEPATH: /home/jstahr99/public_html/aprunway17/perch/resources
Image manipulation: GD Imagick
PHP limits: Max upload 128M, Max POST 64M, Memory: 256M, Total max file upload: 64M
F1: 0c66c2e1f82f9e0b7617b2cb8270f2c7
Resource folder writeable: Yes
SCRIPT_NAME: /aprunway17/perch/core/settings/diagnostics/index.php
REQUEST_URI: /aprunway17/perch/core/settings/diagnostics/
DOCUMENT_ROOT: /home/jstahr99/public_html
HTTP_HOST: move.stahrfamilydesign.com

Thank you again for any help you can offer!