A method is provided for controlling an HVAC system. The method includes receiving zone priority levels and zone temperature setpoints, where at least one of the zones haves a higher priority level than others of the zones, receiving an indication of zone ambient temperature values, determining requested zone capacity values to maintain the zone ambient temperature values within a threshold deviation of respective ones of the zone temperature setpoints, determining target zone capacity values from the requested zone capacity values and zone size values, and from the zone priority levels where the target zone capacity values may be responsive to a total of the requested zone capacity values that is less than a minimum capacity or greater than a maximum capacity of the HVAC system, and causing the HVAC system to provide the conditioned air to the zones according to respective ones of the target zone capacity values.