Here's what the rules say about how to get rid of Threat results:
Sensors: There are four Sensor Stations. Any Crew Dice Threat results rolled must be placed here. Unlike normal stations these do not clear during the Cleanup Phase. Crew Dice placed here may only be returned to Quarters when all Sensor Stations are filled, or when a SEC Crew Dice is assigned to move one Threat Crew Dice from Sensors to Quarters (see “Crew Dice: Security: Clear Sensor action”)
So no using Command results to Order Threats away!