Ok, I've done more thinking about this and am curious about everyone's opinion. Especially if you have some experience with this sort of stuff.
I got some great info from Kris Harbour Woodworking's youtube channel.
Here's one showing a draw bore mortise with roundwood and how to lay it out. Please note how long it takes to do this sort of joint and he has a chainsaw mortiser:
And here he is doing an angle brace. He said for his first one (with his level of experience) it took him 3-4 days to do two angle braces. I'm thinking this is more advanced than what we can accomplish.
My current thinking is to add two beams to the crude drawings in the first post. So each cant (two posts, the beam and two angle braces) will stand up and then a pair of horizontal beams will connect them with tenons. This seems to be how timber frame buildings are designed. Then the rafters can just sit on the assembly and they're no longer holding the structure together.
The first drawing shows the cant details. The posts would have a square end with a tenon sticking up from them. The beam would have some shallow flat spots carved in them to rest on the posts. I've read that getting the heartwood of the beam sitting on the posts is a good idea. Offset peg holes would be drilled through the beams and tenons so when a peg is driven in, it would suck the tenon into the mortise a smidge. Kris aims for 4mm of offset. I'm thinking these pegs should be 1.5" diameter?
The angle braces will sit on flat spots with a lower shelf on the posts. To keep them in place, two pegs will be toenailed at different angles through them into the post. These will probably be 1" pegs.
The second drawing shows the new beams that tie the two cants together. I think drawbore tenons would be a good way to pull the structure together. One issue is that one of the cants would have to move towards the other to seat the tenons in the mortises. Not impossible... These beams would be pretty high, likely above the person door into the library.
We'll probably need to build some beefy sawhorses to hold the cants and logs as we work on them...