1) I'd like to be able to have missle troops stop firing at routed enemies when melee troops are in pursuit, or vice-versa, as this tends to cause some bad friendly fire incidents. Some scripting option like

o not fire at fleeing enemies, or: Do not pursue fleeing enemies.
2) Better accounts of Fortress assaults when you win. Getting: We captured the fortress!, isn't all that helpful for casualty assessment. Some of them are pretty obvious, but often you have to scour commanders' forces afterward to determine how much damage you took in that victory.