Let me first say Allan, "Thank You" for taking the time for testing and moving the discussion away from opinions and more to fact based discussion.
I really like the "effort" based control idea, giving the same effort to both paddling modes seems like a good control mechanism .... for getting same effort to each paddle situation.
Using that short paddle makes me wonder if you are trying to graft a "Kayak" stroke to the canoe, instead of using a Canoe stroke. It is fine either way, but I have never heard anyone say they were happy, with the performance, using a kayak length twin in a canoe. The almost straight down paddle position and pull is very similar to the single stroke mechanics, while a canoe stroke is quite a different animal.
My thinking is that you need to take a full stroke to maximize power/efficiency, no matter what equipment or technique you are using. Kayak stroke and single stroke are usually close to the hull and I would expect similar "SPM" rates, just like you reported. However, the longer blade for a canoe stroke places that blade further away from the boat and the sweep arc of each stroke is significantly longer, the blade stays in the water much longer, so it would be expected that the SPM rate would be much lower. The cadence for a canoe stroke is quite different and slower for the same amount of "pushing water" time.
Something else that likely needs to be defined is the blade area, if the SPM is the same, blade area is going to matter , as is stroke length ... that points right at individual paddling mechanics ... I would like to think that holding the effort, via heart rate, would likely offset/identify/mitigate those differences, but also means small observed differences aren't likely going to be reliable.
Blade style performance always comes up as the primary point, but another aspect of this whole subject, that doesn't seem to get much discussion, is the difference in the actual mechanics of single versus double. Not every one is built/able to comfortably use either double or single mechanics in a canoe, that is just life. I think it is important to take the time to learn about the available paddle options and figure out what will work best for you ... there are very few things in life that are "one size fits all".