Actually, no, I didn't. I used a lot of oil and washed it out with more oil and then carb cleaner afterward, and I wiped off all the journals by hand. If I were doing it again (and soon I will be), I would take the motor out, or at least take EVERYTHING off of it with it in the car. At the time I was working mostly out of the manual, I really didn't know much about cars, but I needed to do it. I've had a lot of criticism about that, and about honing the cylinders myself. I can tell you it was fine though, it never burned a drop of oil, until the wrist pin seized and the rod snapped, punching a hole in the block and sending all the oil onto the radiator/firewall...
I'm planning on rebuilding/building the bottom end of my mini-me when I get back from my summer job. I haven't decided yet if i want the hassle of removing the motor. I've done rings in Hondas in 2 or 3 hours, with the motor in-car, though it would be easier out of the car, it takes a lot longer, and when you're working alone it's just less of a hassle to leave it in. It's just more opportunity for a lot of other things to go wrong. I had the hoist break on me once with the A6 hanging from it! Also think of all the other things you have to deal with, tranny fluid, removing the axles, I personally like to take out the radiator when pulling the motor. That's just a lot of opportunity to break other parts.