11. As of DA 1.7-1.8 (somewhere in there) anomalies do regenerate. You can still "run out", even in a gigantic galaxy, if you have enough survey ships.
12. My understanding was that at Tough and beyond the AI chose their own customization points, regardless of what you had set for them. I can look into this, though.
1. This is in the latest TA beta, and will be in 2.0. I believe it is for randoms only, not specifically for megas, but I haven't yet tested this.
3. A tech can still have multiple prerequisite technologies, but it doesn't display properly in the tree and tech 1 won't tell you that you need tech 2 to unlock tech 3; tech 1 and tech 2 will both tell you that you need that specific tech to unlock tech 3, though. So you sort of have to remember what you need. It's certainly worth noting that in the normal tech tree there are no such instances, but it's certainly moddable and does not in my experience contribute to game instability.
4. You might try the Ascension victory condition in TA, then.
With regards to TA: When you can afford it, anyway.
@Rhunteen
Thanks for bumping this thread.
As far as Linux goes, I was under the (possibly mistaken) impression that GCII worked via Wine. I recall a discussion about Impulse not working on numerous Linux distros, as it needs .net and IE7, but SDC (which was actually praised as working under Wine some time ago) is still somewhat available (albeit hidden) and at least has the most current versions of DL and DA. Edit: Here's the link.
Since this [thread] is in the GCII forum and is about GCII, if you don't mind my asking, what other games are you talking about?