Reply to ccjersey:
I would measure up your crankshaft and see if you can use standard bearings or if it's been turned undersize etc. CAT is going to be the easiest source, but possibly could find them somewhere else???? If it's already undersize and clearances are too great to just replace the bearings, I know someone here has posted about shrinking a sleeve onto the crankshaft and turning back to standard. I would say the economics of that would depend a lot on whether the rod bearing throws are regrindable etc. There's bound to be some good used crankshafts out there in blocks that have been damaged by water getting inside the cylinders etc.
Used would likely be the best source for a nut and washer. Or just take a hammer and file to it! Peen the smushed metal back down and dress it up with the file etc.
You can make a lot of gaskets for $240! All of them should be available from CAT dealer if you want to price them. There wouldn't be so many that you can't just total them up and compare pretty easily. Head gaskets would be the only thing that's not possible to make, and possibly can be reused with some sealer applied. I have heard lots of folks use coppr-kote spray or a coating of aluminum paint, but I would assume a coating of brush-on gasket maker like permatex might work just as well and help on the pitting The only place I would say would demand a skim would be the fire ring area around the cylinders. Almost anything on the rest of the surface could be handled with a sealer.
Easiest thing to do with the block while you have it off and stripped down is to take it and have it hot tanked at a shop. If you want to do it yourself, I would say wash it with Tide or some other good detergent to remove any grease before you put it in a citric acid bath. After the bath, you should be able to poke through all the coolant passages with a stiff wire and blow through with air or water spray. Don't forget the heads and top cover when you do it! I don't think the citric acid will hurt the sealing surfaces at all. You need a little bit of texture on that kind of thing to keep the gaskets from creeping as you tighten things down.
The end play on the crankshaft is not adjustable except by shims/gasket thickness under the cover behind the flywheel which carries the "rear" main and the crankshaft seal. The spec I have on the larger pony motor will likely do for yours 0.010-0.016" (max 0.030") The usuall problem with excessive end clearance is when the main bearing opposite the flywheel looses it's hollow retaining dowel and moves in the bore of the crankcase casting. When you install the dowel, I would retain it with locktite or punch it so it is positively retained in the block. Also do not strike the flywheel and drive the crankshaft axially when installing or removing the flywheel
Base gasket is $7, manifold gasket is $15, head gaskets are $15 each, the smaller gaskets are $2 or $3. I've bought several sets of gaskets individually from Florin Tractor parts, all good quality. I've used Permatex #3 to reseal the head gaskets successfully too.
Those heads are devils to get clean, I found a pressure washer and a length of wire gently probing around works well, you will find if you let the heads dry out over time it will allow more loose crud to become dislodged. I cleaned my heads 5 or 6 times over 3 weeks and kept getting small bits of rust crud out.
I also did a long term soak in Citric Acid last winter that went pear shaped, I left the heads in a small bath sitting outside for 2 weeks thinking it would be A1, but found by week 3 I had etched the machined faces on the heads slightly and needed to machine them. It was frosty weather at the time. I love Citric Acid, it is excellent, but just be aware it can etch machined steel faces under certain conditions.
I used about a cup of acid powder in 5 or 6 gallons of water that time, so it was a pretty strong solution, normally I use about 4 or 5 cups of powder in 100 gallons of water. I have a large plastic stock trough that I can place larger items into, like the rolled up tracks off my D2 that were rusted badly, it worked brilliantly.
Be aware also that water passage below the pilot motor is fairly small and I've noticed on my old Cats where I've removed pilot motors that it can be easily blocked with the typical sludge and rusty crud that gets dislodged during a rebuild. Use flush water generously in all directions, you will be amazed how each time you do it more little bits of crud come out.
Cat Dealers are the best place to buy nuts and bolts, they are the right product at the best price, cheaper than most any other sources I've found. Those gaskets are available from Cat Dealers too, just a lot more expensive.
Good luck
Mike