I put a 460 and C-6 from a 71 lincoln MKIII in my 77 F100 which had a 6 cylinder, 3 speed on the column. There are several things I had to deal with but here are the some of the main ones(choose those that apply):
REAR AXEL: I had a DANA (3.08 open) instead of a 9" so my u joints were the smaller size. I used the lincoln driveshaft and had it shortened and fitted with the smaller u joints so it would bolt up.
CROSSMEMBER: Because the Lincoln transmission is longer than the standard truck automatic and the standard 3 speed, I had to move the crossmember back about an inch and drill another set of holes. I used the mount from my three speed which worked perfectly.
TRANSMISSION: Once I got this all installed and running, the transmission would shift almost immediately(about 5MPH) to 2nd. With all the torque and light truck, it really didn't matter, You could burn the tires down to the nub if you got on it. Vacum really wasn't a factor with stock induction and a 1 inch carb spacer. I did have to lengthen the stock shifting arm from the steering column down to the transmission.
ENGINE: D1VE block bored .30 over for 466 cubes. Moly rings, stock crank(polished), stock replacement pistons, stock rods, D0VE-C heads with stock valvetrain, stock timing set with straight up gear, stock induction with 1 inch carb spacer, stock carb, electronic distributer with harness which pugged right in to 6 cylinder harness. I used stock exhaust manifolds from an F-150 and engine mounts and perches from an F-250. All this bulted right in. With this combination, you can pass everything except a gas station. You wouldn't believe the torque this thing put out. If you got on it at all, it would just spin the tires. By the way, the front end sat about 2 inches lower due to the extra weight and it was a different handling truck
COOLING: I used the stock radiator out of an F-250 with 460 along with the fan shroud. It worked great but my truck was built with a radiator support from a 73 truck which has a smaller opening for the 6 cylinder radiator(spare parts laying arround in dearborn). I had to get the support out of a 73-79 460 equipped truck.
BRAKES: I had to change the pedals to go from standard to automatic. In order to use my non-power brakes, i had to use my brake pedal from the stock pedal set on the automatic pedal set. You just take it apart and swap them. I would recommend changing the whole setup to power brakes. This thing was a bear to stop even with disk brakes in the front.
STEERING COLUMN: No real issues other than the aforementioned linkage extension and hooking up the reverse light switch.