What causes a wordpress homepage to load
<p>UPDATE: Real links below to illustrate my issue.
Stick with me on this, because it is a valid question.  </p>

<p>In the old days I could have danhoover.org which was a wordpress site and I could have danhoover.org/new which was another wordpress site and both would load fine. I could even point danhoover.net to the danhoover/new directory and the page would load just fine no matter how you got there.  You could use danhoover.org/new or danhoover.net and it would load fine.  All the permalinks would work. No problem.</p>

<p>Now, however, there is some sort of voodo going on.  If a wordpress site is in the danhoover.org/new folder and configured to be "danhoover.net", navigating to the folder as danhoover.org/new will just get you a 404 error.</p>

<p>In addition, going to danhoover.org/new/index.php will get you a 404 error.  </p>

<p>There is some sort of voodoo going on that makes you use the url defined in the configuration for the site to work properly.  What is it? Is there any way to manually update the permalink structure so it loads properly with either domain?  </p>

<p>I guess I'm just confused as to what in the world wordpress is doing that is different than any other php site that prevents it from loading. </p>

<p>UPDATED LINKS:
I have a folder /a which has <a href="http://campscoreboard.net" rel="nofollow">campscoreboard.net</a> pointed to it.
I have a folder /a/c which has <a href="http://www.c.campscoreboard.net" rel="nofollow">www.c.campscoreboard.net</a> pointed to it.</p>

<p>Wordpress links:
You can go to <a href="http://www.campscoreboard.net/c" rel="nofollow">www.campscoreboard.net/c</a> and the homepage loads
You can go to <a href="http://www.c.campscoreboard.net" rel="nofollow">www.c.campscoreboard.net</a> and the homepage loads and all
the links work.
But if you go to <a href="http://www.campscoreboard.net/c" rel="nofollow">www.campscoreboard.net/c</a> and click on a link like the
Hello World article, you're redirected back to the root for some
reason.</p>

<p>Vanilla PHP Links
You can go to <a href="http://www.campscoreboard.net/c/test.php" rel="nofollow">www.campscoreboard.net/c/test.php</a> and it loads fine.
You can go to <a href="http://www.c.campscoreboard.net/test.php" rel="nofollow">www.c.campscoreboard.net/test.php</a> and it loads fine.</p>

<p>Only the wordpress urls are redirecting back to the root when loaded via <a href="http://www.campscoreboard.net/c" rel="nofollow">www.campscoreboard.net/c</a></p>