dluyk,
On the fenders, that hole is threaded. I suspect a nut or doubler (that has been threaded) is on the inside surface of the frame. The parts manual shows that bolt 3/8 - 24. It may be possible to extract it but extractors are notorious for snapping off in the hole you drilled. I've had better luck drilling a bigger hole than what the directions say (just inside the threads) to give the extractor a deeper penetration. If that doesn't back your snapped bolts out with very little effort (before the extractor snaps off too), rethreading the hole will be safer.
Added: I see a nub sticking out. Others have described welding a nut onto the broken bolt. It heats and expands the hole to help loosen the grip and gives you a really good hex shape to get a wrench or socket on.
On the steering gear assembly, you should have a set of ball bearings for the top too. How many did you put back there? They should match. The parts manual shows:
639104 Ball, steering gear cam (Steel) 5/16".....22
That would suggest top and bottom will hold 11. I'm betting you still have a couple or so hiding in a corner. Do you have a good magnet? Use a flashlight flat across the floor to create a long shadow (I've found many tiny pieces this way).