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Category Order could not understand your category HTML. Please do the following:

Disable all plugins except for category order to see if some other plugin is causing the problem. If the problem goes away, re-enable each plugin until you find the incompatible one.
Try switching to a different theme, like the WordPress default theme.

Once you have tried the above steps, email david@coppit.org with the results of these debugging steps. Also include the following information:

Original HTML:
<li class="cat-item cat-item-272"><a href="https://blogs.bootsnall.com/TheBays/category/costa-rica" >Costa Rica</a> (18)
</li>
<li class="cat-item cat-item-598"><a href="https://blogs.bootsnall.com/TheBays/category/el-salvador" >El Salvador</a> (4)
</li>
<li class="cat-item cat-item-581"><a href="https://blogs.bootsnall.com/TheBays/category/guatemala" >Guatemala</a> (14)
</li>
<li class="cat-item cat-item-7545"><a href="https://blogs.bootsnall.com/TheBays/category/honduras-nicaragua" >Honduras Nicaragua</a> (8)
</li>
<li class="cat-item cat-item-7544"><a href="https://blogs.bootsnall.com/TheBays/category/mexico-guatemala" >Mexico-Guatemala</a> (26)
</li>
<li class="cat-item cat-item-2517"><a href="https://blogs.bootsnall.com/TheBays/category/panama" >Panama</a> (4)
</li>
<li class="cat-item cat-item-132"><a href="https://blogs.bootsnall.com/TheBays/category/travel" >Travel</a> (34)
</li>
<li class="cat-item cat-item-7543"><a href="https://blogs.bootsnall.com/TheBays/category/us-mexico" >US-Mexico</a> (13)
</li>

Processed HTML:
<li class="cat-item cat-item-272"><a href="https://blogs.bootsnall.com/TheBays/category/costa-rica" >Costa Rica</a> (18)
</li>
<li class="cat-item cat-item-598"><a href="https://blogs.bootsnall.com/TheBays/category/el-salvador" >El Salvador</a> (4)
</li>
<li class="cat-item cat-item-581"><a href="https://blogs.bootsnall.com/TheBays/category/guatemala" >Guatemala</a> (14)
</li>
<li class="cat-item cat-item-7545"><a href="https://blogs.bootsnall.com/TheBays/category/honduras-nicaragua" >Honduras Nicaragua</a> (8)
</li>
<li class="cat-item cat-item-7544"><a href="https://blogs.bootsnall.com/TheBays/category/mexico-guatemala" >Mexico-Guatemala</a> (26)
</li>
<li class="cat-item cat-item-2517"><a href="https://blogs.bootsnall.com/TheBays/category/panama" >Panama</a> (4)
</li>
<li class="cat-item cat-item-132"><a href="https://blogs.bootsnall.com/TheBays/category/travel" >Travel</a> (34)
</li>
<li class="cat-item cat-item-7543"><a href="https://blogs.bootsnall.com/TheBays/category/us-mexico" >US-Mexico</a> (13)
</li>

Category pattern:
/http\:\/\/blogs\.bootsnall\.com\/TheBays.*?\/category\/(?:[^\/"]+\/)*([^\/"]+)/

Items:
Array
(
    [0] => <li class="cat-item cat-item-272"><a href="https://blogs.bootsnall.com/TheBays/category/costa-rica" >Costa Rica</a> (18) </li>
    [1] => <li class="cat-item cat-item-598"><a href="https://blogs.bootsnall.com/TheBays/category/el-salvador" >El Salvador</a> (4) </li>
    [2] => <li class="cat-item cat-item-581"><a href="https://blogs.bootsnall.com/TheBays/category/guatemala" >Guatemala</a> (14) </li>
    [3] => <li class="cat-item cat-item-7545"><a href="https://blogs.bootsnall.com/TheBays/category/honduras-nicaragua" >Honduras Nicaragua</a> (8) </li>
    [4] => <li class="cat-item cat-item-7544"><a href="https://blogs.bootsnall.com/TheBays/category/mexico-guatemala" >Mexico-Guatemala</a> (26) </li>
    [5] => <li class="cat-item cat-item-2517"><a href="https://blogs.bootsnall.com/TheBays/category/panama" >Panama</a> (4) </li>
    [6] => <li class="cat-item cat-item-132"><a href="https://blogs.bootsnall.com/TheBays/category/travel" >Travel</a> (34) </li>
    [7] => <li class="cat-item cat-item-7543"><a href="https://blogs.bootsnall.com/TheBays/category/us-mexico" >US-Mexico</a> (13) </li>
)

Costa Rica (18)

El Salvador (4)

Guatemala (14)

Honduras Nicaragua (8)

Mexico-Guatemala (26)

Panama (4)

Travel (34)

US-Mexico (13)