THE RATTLE WAS THE HOOD HINGE ! It SOUNDED LIKE IT WAS COMING FROM THE DASH or the Engine compartment !! This is a common problem that the dealerships find difficult to locate!
The hinge gets loose with time and causes a snapping sound over bumps, it can be corrected with a piece of stiff foam rubber about 2" high, placed on the round shock tower near the passenger side hood hinge ! If the noise goes away you can easily replace the hinge for about 20 bucks.

as for the windows, there are bolts holding the window in place and on the track, tighten those up should help a bit, but basically are cars have framless windows and a shitty glass shape so there isnt much you can do for it. Ill try to check it out and give everyone a fix, I love troubleshooting problems like that.


Also for the suroof there is bolts/screws that also come loose.

but you all basically said it, once you start taking stuff apart and dont torque the bolts correctly you will get noises, but nothing a little silicon caulk wont fix.