Success at last! The engine came alive tonight after many months of work. I ran the engine for a few minutes to get the oil circulating and check for potential problems. It took a while to get the oil light to go out, but once it did, I was relieved. However, I do have an oil leak from one of the bottom end studs (see pics below) so I have to tackle that problem. I called Mike, the engine builder, and he suggested that I take the nut off and seal the rubber washer with some Honda HT gasket sealer. Any other suggestions are welcome.
The engine got pretty warm, but my oil cooler stayed cool. I was worried that it wasn’t flowing through the cooler so I unhooked the oil lines and looked for oil, it dripped out, so I assume oil was circulating through the lines. The engine took almost 6 quarts of oil, I was a bit surprised, but the oil filter is large and with the cooler and extra lines, they could easily take a quart alone. I looked in the oil tank and saw a purpleish oil, so the assembly lube has begun to come off.
The bike is idling a bit high at the moment, around 2000 RPM. I need to adjust the idle screw, but it is difficult to reach. The CR carbs worked flawlessly. My exhaust note is LOUD even at idle. The comp baffle sounds great. Earplugs will be required.