setting the rally point from colony list is cool! A few more things to maybe make rally points easier/more useful:
a way of choosing rally points by type of ship being produced, so maybe check boxes for military, troop and constructors in governor screen so that any rally point changes apply only to planets making that type of ship
or, more options in the type of rally point dialogue, so you would have military rally points (with the usual standard\fleet\auto attack suboptions), constructor rally points, and troop rally points
if you have a few different rally points, a button to set all planets to nearest rally point.
with these, you could do something like this:
create a few military rally points near areas of war, with nearby troop rally points (but maybe a bit deeper in your territory), and create a few constuctor rallypoints on the starbases you are wanting to upgrade.
press a button on the governor screen to have planets producing the relevent type of ship set their rally points to the nearest rally point of the corresponding type.
dont know if this would require a lot of work, but It would save me for one lots of hassle gathering my forces and upgrading my starbases! and if it could update rally points automatically when you change the type of ship a planet is producing that would be even better!
hope this makes some sense
Mark