When you say "toggle on/off", do you mean when you start running it gradually "toggles on" or do you mean the button that allows you to enable/disable the mod?
What it sounds like to me is that early in the game, you'll want to always be running faster when you're in the early game, you could try setting the speed up time to 0.1, and seeing if that's what you like. Then once you want the adaptive stuff to kick in, you can just set it back to something like 5.
You can also set the base speed to something above 100% in the early game, if that's what you want.
It's not entirely clear what you're asking, but perhaps that'd suffice?