So hey, Meklozz - I had a few things come up in testing that I think are worth bouncing off you for ideas.
1. Your HP graphic - it works beautifully for connectivity, but the squarishness of the first bar doesn't blend well with the "hull" symbol just above it. Maybe if the graphic did the same as it does now, except that the very first bar looks like it usually does, and the very last bar would slide down to "match" the next set with a first bar?
2. To fix Ellipses that are out of place - there are four values. How do I know which one affects what? I'm assuming that there's two x values and two y values, but there's nothing in the text file itself to suggest which is which.
3. Any idea if a Flagship can handle more than 8 power in a system? I had a Flagship that should have been launching 4 Drones at 9 power, but I only saw 8 powers' worth of Drones at a time despite the fact that it had enough power and the system had enough power assigned to it. But no way to "see" exactly since Sensors are disabled in-game.
4. Is there a way to place crew in particular places on the Flagship? External weapons arrays (the ones that are separated from the ship in the beginning for many of them) I've found don't have a crewman manning it - and thus it's easy to take down the weapon with nobody to repair it.
Anyways that's some of the technical stuff I've noticed so far. I think all fixable, but I don't have enough knowledge off the hop to solve it all right away.
Also P.S. I'll be gone for a week during Christmas break. I'll still be talking on the forums, I just won't be testing/modding again until after New Year's. Should give some time to get some feedbacks for various Flagships and other data so I know what to do when I get back!

P.P.S. Merry Christmas!