Create a system that handles updating the default configurations to add missing configs

[bajuwa]

This will cover when people update an existing version of CC Suite with different configuratiton expectations

The system should be able to handle:

• Triggered on a specific command (such as --update-config) and include this command in the error logs when config loading fails
• Adding new keys to [default] with preceeding comments
• Commenting out deprecated [default] keys (if any)
• Logging during program runs when a deprecated key is detected in a series configuration