I took the advise regarding bedding brakes this morning. I found an empty industrial subdivision at about 6 am. Got up to about 60 mph and hard braked, not panic braking, to about 15 mph about 8-9 times. There was definitely smoke and a strong brake smell. I ran about 15 minutes barely touching the brakes at all and mostly cruising at 40-60 mph. There is still some brake dust smell, but the brakes seem to bite much better now. I've got an autocross tomorrow and will comment back on the changes.
I finally got my car back from the body shop yesterday. They did a nice job cleaning the wheels. It looks like I haven't washed the wheels in about 2 weeks now!