Just wanted to provide an update. I've set up a work around by having our end user name the files they need to work with with an extension associated with notepad, allowing them to open the files as expected. Of course this doesn't resolve any issues that will come up later should we need to open a file that is un-registered, but reloading the system is not really a viable option at this time.
If anyone has any clue on this, please reply with suggestions or personal experience with this. Thanks!