I installed mine last weekend too. They are extremely bright. My wife complained about the glare. I might look at some kind of softening filter for them. I have mine connected to the dome light circuit and Aux 6.
If you are hell-bent on listening to CDs in your Bronco buy a used trunk mount or under seat CD Changer and put it into the Aux input.
However, IMO, it'd be slightly more reasonable to have a service just put all your CDs on a USB stick.
I’ve got this top on the four-door and I also love it. If the flapping bothers you, I added foam covers to my bars and the roof is much more quiet now.