First, if you do that paint the Lexan idea, I'd not use lexan but something MUCH cheaper. While browsing Fleet Farm today, I walked past the display that I got my plastic for my arcade I'm building from. I noticed they now had Lexan as well. The price? $40-some for a decent sized sheet, while the same size of acrylic plastic (Plastikote is the brand) was about $11. It's very clear and strong. I had to use a stronger version for my CP because the cheaper stuff would crack from drilling fast, but if it's just to cover up something, you should go cheap. As far as heat, get some quiet PC case fans, and mount them in the top and bottom backside of the juke. Have the bottom ones pull air in, and the top expel the air. This should create a nice airflow. For really hot areas, perhaps a fan above and below using the same idea would help. My roomate has a computer with 4 case fans, a CPU fan, and the power source fan running at once. The fans are all cheap and quite noisy, so if you value your quiet when the juke's not running, get quiet fans. Most fans have a decible rating.
Hope I helped...?