Cutting the notches is not a big deal- I routed mine before applying the hull sides to the boat, but it would still be easy with a pull-saw, a drill bit, and a dremel or file to clean up. You will NOT get a fair shear with just the raw plywood edge.
I used 3/4" x 1 1/2" (19mm x 37mm) full length fir, with the bottom edge radiused, and used a full length batten as a caul on the outside of the hull panel when I clamped them up so that there wouldn't be a hard spot at each clamp.
Clamping:
It would be perfectly acceptable to use small screws every couple inches instead of clamps, and remove them after the glue sets. By now in your build, hopefully you've realized that fastener holes, zip tie holes, and lots of other abuse to the once-virgin ply panels just don't matter.
I didn't tape the inside corner of the shear- the shear clamp is there to provide a bunch of surface area, I used a fairly hard wood, and I used biax tape over the outside where the fibers are in tension and doing the most good. But maybe that's just rationalizing, because I did not want to tape that joint if it could possibly be avoided!
Here's how it looks from inside: