I would call out the installer, you said it was new, so it should be under warranty.
The "W" wire is traditionally the call for heat which may not be getting to the upstairs unit, and if it is, then the unit needs to be diagnosed.
SOURCE: Mr Slim Model PEH3VK no air in one zone.
The Zone controller needed replacing so I rang for a Serviceman
SOURCE: Zone cooling not delivering adequate air to both zones simultaneo
You need to have someone evaluate the ductwork for the home. With all zones calling, there should be an even balance of airflow. And when only one zone is calling, there should not be the tornado effect you describe.
The dampers feeding each zone may be of the wrong size. It also sounds as though you are also having a problem with your bypass damper. This damper is designed to bypass excess air when only one zone is calling. It is operated typically off the airflow alone.
Have it check out. You definitely have a problem. I would recommend getting it looked at by a company other than the installing company to remove any bias judgment or diagnosis.
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