They can mitigate at least part of my issue with Zenos if they actually have him do things of consequence, make him a force to be reckoned with driving the plot and not just waiting for us to get strong. It still irks me that he stomps us i RR and the game 'tries' to play this off as a devestating defeat but how bad can it REALLY be if the resistance is able to hold onto that base of operations after the attack? Then in Doma when we lose to him, there are no consequences. In fact it plays into our favor because it ends in Grynwaht arriving at just the right time to help rally the Xaela against the Empire.
I'm not saying Zenos has to kill a major character every 5 minutes but if they're goign to play into the threat he poses he needs to actually do important and devastating things, again with Kefka as an example.