Re: End cap removal
By the way, there are six holes in the end cap. Three obviously for the bolts and three more that are about 3/16" but are not threaded. I assume I could thread these and use a suitable puller.
Yup, that'd be the best way to pull, using a puller that can bolt up to the three holes. The end cap is merely a snug fit into the machined I.D. of the block, and with enough persuasion it'll come right out. Using a proper puller you shouldn't even need to loosen the bottom (2) crankcase-half bolts.
I'm assuming you're looking to change out the lower seals; be sure to note their orientation and position before you drive out the old ones. Also ensure the new ones are pressed back into the exact same place as the old.
If you find the crankshaft seal surface is rusty or worn, Merc sells a purpose-built "speedi sleeve" that you can press on the end of the crank to give the seals a new surface to bear against. Same idea as a seal-saver for an automotive harmonic balancer.
Lube up the new seals with a thin coating of engine oil, assy lube, Lubriplate, etc.
Renew the bearing cap O-ring as well, and when you reinstall use caution to drive it down evenly. Note that the cap will only bolt up properly in one position as the spacing of the bolts holes is not even.
I like to use a sparing coating of Permatex #3 Aviation-Type gasket dressing on the bearing cap O-ring and on the flange as well, this helps seal salt and other debris out of the cap-to-block interface. Just be sure not to get any sealer on any oil drainage holes which may be present in the cap.
It's very tempting to pry upon the 'ears' of the cap but you've got the right idea to use a puller. It's also very easy to break the ears using improper disassembly techniques!
HTH & Merry Christmas........ed