Cool.
I would say that Protocol 01 feels pretty good.
For Protocol 02 it's a little strange trying to understand what Generation Matrix or Processing Matrix are actually going to do. It's also unclear how important getting 4/4 for each would be or if it's possible. It's also just a little more difficult to understand when you need to click on a given component because it's the one that's important to the next upgrade. There's enough visual clutter that it's not as clear.