Kieth, You mentioned that your boost referencing was disconnected. If that is so than you need to be checking the vacum under the carbs, but above the blower. Your Boost/vacum guage is irrelevant since it is connected below the blower. The power valves sense vacum through a small hole in the carb base plate.
I went through this same process on my boat a few weeks ago. First I established the highest cruising speed I could get without cracking the secondaries open. Do this by simply having your bravest buddie crawl back and check while you are cruising. In my case it is 3700 rpm, At this speed I have about 6 inches of vacum, so I put a 3.5 power valve in the primaries-so that it will be shut for better economy. I elected to remove the powervalve and upjet 7 sizes in the secondaries.
If I remember the #s right, a motor will like around 12:1 air fuel ratio for best power and around 14.5:1 for cruising. As mentioned before, there is a pretty heavy load on a boat motor, and I would venture to say that by the time you are getting into your secondaries, it would be safer to be closer to 12:1 A/F ratio. The sole function of a powervalve is to richen the A/F ratio at WOT.
You also have to be careful that your carbs aren't seeing a vacum reading higher than the rating on the power valves at WOT. If this happens, the power valves will close, and bad things could happen!
I have a portable vacum guage in my boat, you're welcome to use it on the lunch run next saturday. Hope this helps.