Jon already plans on having something like this for the game, but he only planned on having a single option that toggles everything on and everything off. Since some people are seemingly split on some of the changes such as the homing attack why not make it so people can basically customize what they want enabled through multiple options instead?
It would allow people to customize what improvements they want to play with. They could even play the original game with a few select changes if they really wanted to.
That sounds like an interesting idea, not sure whether or not Jon would want to take that kinda time to program something like that but would be cool.