So here is the final design I would like to implement. The small shelves to the left of the toilet are designed to conceal the main stack and to constructively use the space that left between the main stack and the wall.
It is personal choice, but large square or rectangular tile in a smallish room will not look "good" if placed parallel to the walls. I have 12" square tiles, in a large kitchen they look fine. But for two small bathrooms, the tile guy said they should be at 45 angle. We did the 45 and it looks good. It sounds like extra cutting but for our square tile, a corner to corner cut gives you two pieces. It looked so good that when I did two larger rooms with 18" square tile, I set them at 45 degrees, cutting was no big deal with diamond blade.