You'll only notice AA if your art-style has black lines with brighter colors... since I use more contrast I notice it in my game.
Quote:
Game Starter (edition: Pro; priority: medium)
Allows for a more flexible control of starting the game and setting icons, window titles and game parameters through a startup panel.
This should solve any problems, I think allowing users to toggle AA before the game starts is good enough. I remember a few games doing it this way.