While Amber Acorn provides an interesting challenge, I've found that the boss generally only impacts one hand. After my first hand, I know where the jokers are, and can reposition them for best effect for the most part. If the boss effect shuffled the position of the joker's effect, or shuffled after every hand, then it may be a more challenging or more impactful boss.
OTOH, effects which take away player agency are often bad, and that skill based bosses, where knowing the effect of your jokers and knowing how to reposition them is pretty valuable gameplay design.