I had installed a lot of plugins and decided to go through my error log to see if any were causing errors, and it turns out the only plugin getting an error was popularity contest. It read "[01-Feb-2009 03:54:14] PHP Warning: require(../wp-blog-header.php) [function.require]: failed to open stream: No such file or directory in /wp-content/plugins/popularity-contest.php on line 62".
So I went to line 62 in the popularity-contest.php file and saw that it was trying to locate wp-blog-header.php, but it seemed to be looking in the wrong place. Line 62 says require('../wp-blog-header.php'); but it was actually located two directories down, so I added another ../ to it so it now looks like require('../../wp-blog-header.php'); . Afterwards I deactivated the plugin and replaced it with my patched version. I also cleared my error log and then activated the patched version and started testing my blog. I clicked through various pages and did some searches. I then went back to check on my error log and it was still empty, meanwhile my popularity contest plugin appeared to be totally functional as well. I admittedly don't know a thing about php and so I have no idea if what I did was correct or if it actually fixed anything that was really wrong, just figured I'd share my experience. Any additional input would be helpful. On a side note, the error didn't seem to effect the page much, it may have slowed it down a bit, but other than that, the only major problem was that my error log was growing very large (and that's just from me testing, as my blog isn't live yet). That is why I insisted on fixing the issue.