It's up and running now. I uploaded a few pdf's from the Nintendo web site a few days ago and just now uploaded a Bushido Blade 2 scan I made that weighs in at 16 pages and 150MB. Everything seems to be working. Next I should make a small tutorial to show people how to scan and submit a manual if they need help.
The upload system is working and I tested it using a scan of Bushido Blade 2 for PS1 that I made several months ago. I'm still having an issue with it timing out on large uploads so I was only able to upload the first half of the manual. I'll keep working on the timeout issue and also add more validation and error messages, but for smaller manuals it should work now.