Good
You have a good game there ! requires some real time strategy and offers a good challenge too ! The only thing i'd say you would have to add to the game is the Planet killer base.. you should be able to aim which star you want to kill but other than that it was cool ;)
You can, just drag the planet killer base to the target, and it only fires at that.
The drag and drop also works on Naval bases for setting waypoints.
Frustrating glitch
There is a frustrating, frustrating glitch. An enemy star will send a ship towards a non-existent star. It will wander off the screen, and the program will still read it as active. So, after battling all the way to the end of a level, you can't win, because there is one straggler somewhere off in the ether. I'd recommend placing some large, neutral stars beyond the borders of the playing area, so the game will destroy the occasional straggler.
Otherwise, it is a massive, massive improvement on the first game, although the missile stars are disproportionately strong. It's close to a perfect balance, but they could be tweaked down just a hair.
Strange bug. I'll have a look at it.
Not bad, not amazing
It's quite worthwhile playing if you like RTS and if you like taking over the galaxy.
However, there are some problems. The campaign mode presents you with some situations that, if you don't act quickly enough (I mean reflex-style quickly) you will not be able to succeed. This speaks a lot for the game's balance, but maybe it also suggests that there should be some advantage to the player to ensure that they're not running up against brick walls.
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It bugs me that there are very few differences between this game and several others, including your last version of this.