ionAuth controller and view overwrite

Have you checked the directory and file names?
Linux systems are case sensitive, so if you have a discrepancy between upper and lowercase file or directory names that could thrown the whole thing off.

At least this would be the first thing i would check in a similar situation.
The next would be to ensure that the folders and files are accessible for the user/group that runs the web server (typically www-data or apache etc...) use htop top check the username of the httpd process.
The third one is to ensure that the writable folder is indeed writable for the above user so session and log files could be created.

A suggestion: if your final environment is linux, then develop in linux (virtualbox/vmware is your friend).