http://www.youtube.com/watch?v=L2CSIRXe88I It's not really a cartoon, and I didn't watch it as a kid, but this song has the most kicking guitar of any kids show ever.
There are a lot of good ones I can think of: Megas XLR, Samurai Jack, Darkwing Duck, Ducktales, Sonic Sat AM, Street Sharks...