When you said it took two weeks to recover, exactly what took two weeks to recover?
Your really rewriting the books on HR with your condition, so any normal answers don't really apply.
I wonder if your current HR is what it should always have been and that the arrhythmia for some reason always showed a higher reading than normal on a monitor that wasn't smoothing the data at all.
My own suggestion would be to get yourself a lactate monitor and do some research with that to find what your lactate threshold is on a land based paddling machine.
Once you have accurately established your HR at threshold that way, you will have no more guessing.
This is assuming that you don't have some strange quirk to your HR now that you have had surgery.
But if you do, a lactate versus heart rate versus power data set will at least show it up and guide you into further research if need be.
What did the surgery involve?
Another thing is that a lot of paddlers use a slow stroke that always has a lower initial HR that steadily climbs with workout duration at the same perceived effort.
This is because at sub maximal efforts there is always a smaller contribution of purely aerobic and a portion of anaerobic metabolism that takes a while to stabilise when using such a low cadence.
It's like climbing a big hill on a bike in a big gear, feels great at the start and the HR stays low, but in the end it catches up with you, versus spinning up the hill in a little gear in which the HR rises rapidly and stays at the same level, but is maintained without a rise over time.
You should have a similar HR over 2km as your 6km paddle, only a small increase for the shorter event.
Your increase of 10 beats to me suggests the too big a gear scenario.
So my suggestions are a smaller paddle/shorter paddle to get your revs up.
Follow the path of the independent thinker. Expose your ideas to the dangers of controversy. Speak your mind and fear less the label of 'crackpot' than the stigma of conformity. And on issues that are important to you, stand up and be counted at any cost.--- Thomas J. Watson