I understand your points I think, but is using L5R decks really the best way to handle this sort of experience? Wouldn't it be better to play something like GoT the board game, or if FFG put out an L5R board game where people vie for control of the empire? War of Honor only was fun if you didn't mess with the original decks, since it was too easy to break the game otherwise. The game isn't really balanced around this sort of thing, which I personally don't find fun, since usually that removes any interesting use of skill (to me) and leaves it up to either chance or forgone conclusion.
That being said, I hope they are working on a military strategy style board game.