Regarding Courage: I believe the description is dead wrong; the debug file refers to a courage bonus in ship combat, and I believe that I read somewhere that it will give a ship with lower attack/power a boost.
As for my preferences, they seem rather standard, though of course, there are many factors. I think most that can be said for DL has been said, but I'll add that Drath with maxed Economics and PopGrowth, Universalist party, are awesome. Morale seems to have less impact in DL than DA to me.
In DA, of course, innate bonuses are added to chosen bonuses, which makes further improving those bonuses a fairly obvious strategy. Economics and morale, however, should just about always be picked. It's such a shame the PopGrowth bonus choices were nerfed (max is 40% for 5 points instead of 70% for 6), or I'd use that a whole lot more. Anyway, depending on my race, strategy and fancy, I might pick research or production bonuses, or weapons, luck, speed, planet quality, or very rarely defense or diplomacy bonuses.
And, that last paragraph was probably really unhelpful, but I'll post it anyway.