Did you guys use a butyl- based deadener, or a mass-loader style deadener?
Orientation of the subs shouldn't make that much if a difference really I would imagine, since the port is pointed forward.
My truck was an extended cab, the caddy has noticeably more cabin-gain so its affected by vibration more I think. I'm no expert, everything I've learned is mostly trial and error, but the cones pushing out wouldn't displace that much air on the door side since there is so resistance to the pressure since the air is free flowing in the cabin.. Where in the box it's restricted, so having the ports pointed at windows would be far worse then having the subs pointed. Unless I'm wrong?