FAQ at the top has a bunch of guides and there are tons of you google it.
Front is a matter of just cutting out however you want to do it. Rear you need to cut between the pinch welds (the little circle indents) but not past them then take a hammer and bend the tabs over inside the wheel well. When you're done make sure you flex your suspension and see if the rear will still rub, if it will you need to bumpstop or the tabs will tear your tires up if they rub.
Flares come off with a 10mm or you can just rip them off. You don't need to keep the plastic inner fender liner up front. You can stuff pool noodles inside the fender to keep mud from getting sprayed up in the doors.