The colors are determined by the color set for the menu. Even if you set that to "automatic" (so it looks at your colors in Photoshop), ou need to understand the way color sets work.
http://help.adobe.com/en_US/encore/cs/using/WS59BED893-683B-492e-847C- 254257E34581.html
Let us know whether you are using automatic.
Moving an element our of the button group should certainly change something.