Hello, I'm using Chrome 50 in Debian 8 with Nvidia Driver 352.55. In this system, all Mapbox GL maps look like this:
I think something goes wrong with polygons before rasterization step. Maybe wrong vertex indexes or something like this. In current Firefox everything works fine.
Can you try the version from the earcut-final branch and see if it looks the same?
It was merged to the master branch so you can now try it too.
This looks similar to https://github.com/mapbox/mapbox-gl-js/issues/2473 which was fixed in https://github.com/mapbox/mapbox-gl-js/pull/2553
I assume this was fixed in https://github.com/mapbox/mapbox-gl-js/pull/2553
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It was merged to the master branch so you can now try it too.