So on my orginal file i took a short break and returned, just to find out my original name didn't work, i searched around for a fix and downloaded one of your files which seemed to fix it, However when i "beat the game" it just kinda crashed and when i rebooted it, it resumed me on the dudes desktop, i can't imagine that's supposed to happen?

The crash is actually the ending. Depending on the choices you make in the final level it's supposed to represent being detained by the DCPS, or that the protagonist is now investigating your own desktop.

Ahh okay, well as i also said it didn't seem to save my original file, i closed out after the third mission to take a short break, went back, and save was gones.

That is unfortunate....Are you sure you used proper capitalization? Your save should be found in the resources/saves folder of your installation directory.

I also lost my progress after logging out on mac :( I was really enjoying the experience too. I checked my login against the save file and capitalization was the same.