I love the empire tree. Wonderful innovation, and it makes managing your empire a lot easier. As someone who failed out of RTS Academy because of poor micro skills this lets me play the game that i've been WANTING to play for years now, but never have the micro skills to enjoy. I have had a few thorny issues however:
1. Autoscrolling - The first problem i have is that i tend to leave the tree expanded, so i can find my ships easier, but as units relocate from place to place the tree autoscrolls up and down, making it rather difficult to click on what i want. Additionally, when i try to double-click a target to focus on it, sometimes the first click seems to make the tree autoscroll as well, which of course makes the SECOND click hit something else and jump again. This second part might only be happening when clicking on enemy ships; i'm not quite sure.
2. Mis-click orders - Issue number two is I think mainly a consequence of issue number 1 - many times when using the empire tree (or attempting to) i accidentally end up issuing a movement or select order to whatever i have currently targeted. "Hey!! Who gave you authorization to phase jump to the Pirate Base?!?! You were supposed to be bombarding that planet!" "Y-you did, s-sir..." "That is BS! I did not! I'll have your command for this, captain!" My capital ship captains live in constant fear of my erratic commands

3. Edge Strafing - Third issue is - i had to disable edge strafing because i find myself accidentally shifting my vantage point left while trying to use the empire tree... especially when using the scroll bar. This is a minor issue, since the zoom system works so well, but i do wish i could have my cake AND eat it too.

Any one else in the same boat with me? Once again, love the game, would love to see some minor fixes in there whenever they make it to the top of the list.