1000w on a set of 6.5s?....seems a little over kill but I know sony amps aren't very clean and put out rated power but I know they work. Either way you will have major light dimming problems and possibly battery charging problems as they try and keep up with demands. Look up Mechman alternators ..if they don't have one available they can build it. I don't remember what the stock amperage is but you will need more. As far as messing up the computer....I'm not sure what you mean with that.
Jeep #3.. 2012 JKU Sahara, Deep Cherry Crystal Red with body color top and fenders, automatic, 3.21's with limited slip.
2010 Mustang Gt 5spd, 3.73's, SLP loudmouth axle back,Roush CAI, factory 19's,leather and glass roof.