Bomb system it is!
I just installed a new system on my jeep Rubicon jku. IT CONSISTS OF A PIONEER HEADUNIT/RECIEVER & PIONEER COMPONENTS UPFRONT & COAXILS ON THE SOUNDBAR + A SKAR PORTED BOX FOR A 10 INCH SUBWOOFER. THE SUBWOOFER IS A ALPINE TYPE X. THE SYSTEM HAS 2 AMPS A SONY FOR MY SPEAKERS & A JL AUDIO MONO AMP FOR THE SUB.OMG IT SOUNDS AMAZING. I USED POLYFILL & KILLMAT ON MY SPEAKERS BOXES ,SOUNDBAR & SUB.ALL IN UNDER 2K SOUNDS LIKE A MUCH MORE EXPENSIVE SYSTEM. IT'S SUPER CLEAR.ALL DONE WITH THE HELP OF YOU TUBE
I went thru Crutchfield.com. to install a new radio/gps/back up camera in my wife's corolla. I bought a kit specific to her car which made the new unit look factory. Price wasn't bad either.
Cargo Cover. Amazon has a bunch.
Also... if you are not looking to take away storage space, there is a stock sub that came with some Wranglers... not sure if they are interchangeable or not. It's an A/W sub recessed into the floor of the cargo area.