Concur with Bugout. In addition, there are some other ideas that other's will probably add to this discussion. !) Obtain some OSPHO, a blue/greenish liquid of phosphoric acid. Get a windex type spray bottle, and wash all your windows. When bottle is empty introduce the OSPHO into it, and be sure to re-label it, and store away from accidental procurement. Wear goggles, and a face mask, bandanna will do, and perhaps a disposable paint suit, or clothes you do not care about. Spray all rust, (after you have mechanically removed all that you can, i.e., wire brush, etc.), with the OSPHO, and let dry a day. Wire brush it again, and re-apply the OSPHO spray. Wait another day, and then begin to prepare the surface with the painting layers as have already been described. Or, cut out various pieces, and replace with some pre painted galvanized sheet steel, but do not torch/weld on it as the zinc can be harmful. Alternately, use raw steel, and paint that up instead. You can, if the section allows for it to drill holes, and bolt it all up with washers, nuts, and run some silicone around the edges of the patch thusly acting as a gasket. I've used a bead of Liquid Nails, or some plywood construction glue as an inner bead surrounded by the silicone bead. Think rings of a target, with the bullseye as the rusted out hole. Round, or square target, lol, alternating the rings with the stuffs.
The OSPHO simply turns red iron rust oxide into a gray/black inert iron oxide. The primer paint, then paint, (there are some rattle can paint companies that also have selections which contain the extra toughness of beads of glass, etc.). Once painted, even simple under body sprays will work ok, using several coats over the afflicted area. Two years ago, the XJ I bought, one could see the road next to the clutch pedal, and door. Fixed as described above, and absolutely no problem since, going through rather extreme temperature extremes, as well as preventing intrusion of water, sand, salt, snow, air, etc. So, the patch I did has so far lasted two winters, three summers, with narry a problem.:repair: