When you delete a colony which is the homeworld/academy for a commander, after saving and reloading clicking on that commander in the F3 commander window will give null pointer Errors in function 384. This makes it impossible to manually reassign the affected commanders.
I'm also seeing some in function 391 in my save for some civilian administrators which are not from the deleted colony, which causes the reassignment list not to show.
To reproduce, open a freshly downloaded copy of aurora with the imperium of man default db, delete Terra, save, exit, restart, open the commander window and click on a bunch of commanders.