I found PHP code online to download attachments to a directory using IMAP from here. http://www.nerdydork.com/download-pop3imap-email-attachments-with-php.html
I modified it slightly changing
$structure = imap_fetchstructure($mbox, $jk);
$parts = ($structure->parts);
to
$structure = imap_fetchstructure($mbox, $jk);
$parts = ($structure);
to get it to run properly, as otherwise I got an error about how stdClass doesn't define a property called $parts. Doing that, I was able to download all the attachments. I tested it again recently though, and it didn't work. Well, it didn't work 6 times, worked the 7th, and then hasn't worked since. I'm thinking it has something to do with me screwing up the parts handling, since count($parts) keeps returning 1 for each message, so it's not finding any attachments I think.
Since it downloaded the attachments at one point with no issues, I feel confident that the area things are getting screwed up is right here. Before this block of code is a for loop that goes through each message in the box, and after it is loop that just goes through $parts for each imap structure. Thanks for any help you can provide. I looked at the imap_fetchstructure page on php.net and can't figure out what I'm doing wrong.
Edit: I just double-checked the folder after typing up my question and it all popped up. I feel like I'm going nuts. I hadn't run the code since a few minutes before I started typing this, and it doesn't make sense to me that it would take this long to trigger. I have some 800 messages in the mailbox, but I figured since it printed my statement at the very end of the PHP that all of the file creation work was done.