It's a really nice project. Putting the planks inside a frame does indeed give the outward appearance of a flush face. I'm glad you were able to use that in your build.
I guess I like to look at plans and modify them to my needs. Probably because I don't have those fine woodworking skills that maybe you have. But I do have some good miter saws so I could certainly cut the angles for that hexagon part of the well.

Mostly I look at plans and think about how to modify them to work with pallet wood. I like to simplify things and try to make them stronger at the same time.

I'm sure people would be glad to see any photos, specs, etc.. on that pallet wood well project. If you get a chance, please post what you can.
Thanks.