Instead of linking to the JavaScript file, did you try linking to the "html" file? I use WordPress, but I use an iFrame to embed Hype projects.
Are you renaming any of the files after they're exported?
Are you using the Advanced Export option?
Also, I'm wondering if web server is like... nope, you can't run that. That seems unlikely, but if you just uploaded everything to the server, then it usually just works.
I purchased the pro version so I could export the OAM and use the Hype a Wordpress plugin to upload the file and create the short code and I’m having exactly the same issue, it’s looking for the min.js in the same location as the page, not in the same folder as the main JavaScript file.