" If Bethesda didn't intend for OA to be this, why did they leave the Gary Exploit unpatched?" I am sorry, but your logic is majorly flawed. There have been bugs in games, and other software, since the dawn of computer technology. Just because something happens, does not mean it was intentional.
The simulator is virtual-reality in the game's lore, it is as real in Fallout as Fallout is in our world, and taking guns out of it makes as much sense as me pulling guns out of my computer monitor. The fact that you have to use a dead -person to do it makes even less sense. It was not a situation the developers predicted and planned for.