Originally, there wasn't a patcher (or at least not that I'm aware of) for Project 1999. So basically, any time there were code changes or anything else, you would have to download a zipped file from the website and manually extract the files to appropriate folders.
The patcher eliminates all that, but if you can't get it work, you might have to do it the old fashioned way that they explain in the setup guide (unless they've changed it since then).
Hopefully this helps? Sorry horrible at helping people troubleshoot, hah.
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