I can ya'll exactly what's going on here, and yes, I think it's a dumb CS6 bug. Never happened to me before CS6. You might have noticed that sometimes the eyedropper tool works just fine and picks up the colors, and sometimes it doesn't. Here's the answer.
The eyedropper tool wont apply colors to groups of shapes, even if there is only one shape in that group. Don't ask me why, but that's the reason. Took me a while to find out. And it seems that if you use the shape building tool in any way it makes the object become a group... and then the eyedropper tool doesn't work properly again.
There are three basic temporary fixes:
- Go into your group and change elements individually
- Use the direct selection tool and select objects to color them individually
- "Ungroup" the object (even if it's only one object!) and eyedrop to your hearts content
They take a bit more time, but at least you can get the colors you want.