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The problem with your Explorer is a fault in the Temperature blend door actuator.The gears inside the actuator are damaged and are causing the clicking noise that you are hearing.On some of these Explorers the Blend door itself may be damaged .You will need to remove the blend door actuator and inspect the door socket where the actuator connects for damage.If there is no damage to the door,install a new blend door actuator.
It is located under the dash to the left of the radio .On the heater box.Dash removal is usually required to access it.
It is but it's a tight fit.
Remove the panels beneath the steering column and the side panels to the center console.You should be able to see the actuator just to the left and below the radio. Remove the dash support and lower air duct.A small 5/16 wrench can get in to remove the 3 screws holding the actuator in place.
Remove dash panels:
remove the brace and the air duct behind the brace:
Remove the upper screw:
remove the other two screws from below:
You may need to gently pry the dash panel away to make room to get the actuator out.
Hope this helps!! Let me know how it goes,thank you. Scott