In addition to the other answers, kayaks' cargo is very different from canoes' cargo.
My sea kayak has about 170L of cargo space in 2 hatches. Compared to my 65L backpack or multi-day cycle trips with 20kg of gear in panniers, that's very generous.
gear needs to fit through the hatches. I could barely fit a 15" laptop for example.
you can't ...
I have a kayak with a rudder & it’s easy to paddle with a canoe paddle. (My kayak is narrow)
I think the double ended paddle is faster,
but more effort.
I find that I get less dripping water on
my lap, it’s less tiring to hold a canoe
paddle, & I feel like there is less wind
resistance in a headwind.
I share another poster’s concern noted
There's a fairly short answer:
The first type is suitable for all craft, including open canoes, sea kayaks and other general touring boats, playboats, in fact just about anything with a relatively wide flat hull.
The second type is suitable for a fairly narrow range of "sit on top" craft that have suitable drain holes in the hull, though for those craft it ...
Another difficulty (or at least downside) of a combined system is that while combining pedalling and paddling uses more muscles, they're still only supplied by one heart and pair of lungs. Either method of propulsion alone can use your aerobic ability, so the combination won't be able to sustain a higher power output.
Alternating drive methods could help ...