If you have a modified MayaScheme file, you may not see the correct layer indicator colors for selected layers in the Layer editors (light blue and darker blue). As well, you may not see the correct color indicator for the override of layer attributes (orange and bolded).
- Workaround
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Add the following lines to your custom MayaScheme file:
layerAdjustmentTextForeground: #e56929 *blueSelectBackgroundColor1: #3884c4 *blueSelectBackgroundColor2: #81a7c1