Mike, how did you go about changing your mounts? Use the boom for the lift or a board across the companionway? Sorry to hear about the cylinders, I fear mine may be on a similar course as yours after years of little maintenance from previous owners.
I watched our mechanic do it. First he got some 4x4x 2 foot long pieces of lumber and pushed them into the engine bay touching the engine angle iron. Then unbolting the engine mounts (and other hoses, wires, etc.) from the angle iron, he slid the engine onto the 4x4s and out of the engine bay. After 30+ years the bolts holding the angle iron were wobbling a bit, so I drilled out existing holes to 3/4 inch keeping track of the the location of the original holes by horizontal and vertical lines. I then back filled them with Thiox thickened epoxy and put some heavy tape over the hole. See picture below
I did this when it was winter and tried to use a standard tube gun, but the Thiox was so hard I had to put it in front of a heater to get it more usable. Apparently there are 8:1 guns that would have been very nice) I then re-drilled the holes for the 3/8 (?) inch bolts.
Some of the bolts on the port side go thru with nuts hidden behind the wall in the aft compartment. I had to cut a 6" wide piece in the bottom of the wall, but will reattach it and put a molding strip over the prior saw line. I also added some of that white seaboard(?) under each motor mount to provide some additional height which was needed. See picture.
While the engine was out of the bay, I cleaned it and applied a new coat of Yanmar paint.