Actually, I think the article is talking about something entirely different than reflexes or muscle memory. I've been experimenting with this "turn off your mind" thing the past few days, and I've been finding I can do some things I normally can't. For example, I can't walk a tight rope to save my life, but I tried clearing my mind of all thought, not even thinking about the task at hand, and just started walking... Made it half way down before I became aware again and fell on my ass. I can actually feel it happen when I do it right... It's like my body is doing the thinking.
Sorry to double post this, you just seem like you might have some experience so I wanted to get your take on it. When should I use my conscious mind vs "going with the flow" (for lack of a better term)?
PS: Aikido seems like an interesting style, I will have to check it out. One of my biggest weaknesses is an aversion to punching someone in the face lol.