Is your Jeep new? If so, you probably just need to properly install the top and/or adjust the door hinges. If your Jeep is older then possibly you could need new seals.
~Lots of modded Jeeps and a Toyota 4Runner~
My favorite quote from the press release.. sad but true: "Chrysler claims its products, especially the Jeeps, can handle all sorts of terrible conditions, churning through muddy swamps, climbing mountains, and crossing rivers. Turns out they cannot even handle a car wash."