I've been developing a system similar to this for the better part of a decade now, and my experience has been that while I have significantly more ideas, they're less distracting precisely because I'm writing them down.

Like David Allen says in Getting Things Done, your brain will bother you with things it thinks are important until you "resolve" them somehow. If you develop a sufficiently robust logging/todo system such that you can convince your brain that you won't forget it if you put it in the system, then it'll let go of it after. (and, conversely, if your brain believes that the system isn't reliable, it'll keep bothering you with the ideas and todos that you put in there anyway)