Just from experience, leave the drain plugs out, heck, huck them out. If it's wet/deep enough to get your outdoor carpets wet UP through the drain holes, your going to want to let the flood recede. It will get dirty, it's a jeep. Hose it out when done and let it dry. My carpets only go back in for winter. Spray em down with carpet cleaner and pressure wash em. They dry quickly on a warm day, just lay them out in the sun.