Yes, node and windows have this little issue with paths.
At first, IDK why you want to copy the folder including node_modules , is better to only copy YOUR files and your package.json file and do a npm install in your new folder.
In any case, I have a similar issue trying to delete completely de node_modules folder and reinstall all dependencies again; this for I created this simple PowerShell script to do it. It uses windows robocopy.aspx). You can modify it to instead of replacing the node_modules folder, you copy all your project to other location. If you don't use PowerShell this .bat file is for you.
Let me know if it works!