I found one "solution" .
My Cityengine was upgraded to 2016.1
Solution: Create a new project and import the layers and models ordering the first(the layer that you want to show on top of the webscene) to the last.
I mean:
Addind to ViewPort
Layer 1
Layer 2
Layer 3...
...
Basemap(the last one)
and publish.
On export models per layer will show the sequencial order that you added(The older first-Layer 1 and the newer last - Basemap).
The problem: If I want to change the order again I must to create a new project and restart the process.
Here my new Webscene updated: http://bit.ly/2toSd5U