So it looks like change the fronts for 6.5" component with tweeters and crossovers. Change the mid read with a 5x7 2 way coax, and replace the rear shelf with 5.25" component subwoofer only.
Not quite Matt - the rear shelf speakers are tiny and so cannot deliver any bass whatsoever - these aren't subwoofers. A subwoofer is usually a minimum 8" diameter and up to 18" in some cases and is dedicated to delivering bass. I'd never bother replacing the speakers in the rear shelf and would in fact disconnect them. They are too small to be of any benefit to those in the front seats and fire directly towards the rear of the car - pointless!