The orange (!) icon simply means there are some orange warning (!) icons on the Build Settings page (probably having to do with Crosswalk settings). You can ignore the orange (!) icon if it is in reference to something on the Build Settings page that has no bearing on your app (for example, you have deliberately deselected the "optimize for Crosswalk" checkbox).
It's possible you are specifying an older version of Crosswalk, which will generate that orange icon; down at the very bottom of the Build Settings tab. Note that "unchecking" the "optimize with Crosswalk" creates the orange icon. It is not a problem, just a warning. Everything will still work if all you see are orange icons.