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The best place to start is with getting trouble codes from the HVAC system itself. However, you haven't posted your year, trim level, and whether you have climate control or standard heat/AC system.
Hi,

I have the exact same issue with my 2008 Pilot as well, did you manage to fix it and how?

TIA

~Mani
 

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For anyone reading this thread here’s what I have found:
1. No air from front center vents, but you have blower motor working (you can hear it if you put the fan on full blast. It’s the motor to the right of the accelerator pedal. You can watch the actuator try to move when you have someone press ‘mode’ with the A/C on full. You should get floor only, floor and defrost and console vents only on different ‘modes’ as displayed on the LCD. Try gently ‘nudging’ the motor in the direction it’s trying to turn. You may want to lightly grease the actuators with some silicone grease. This worked for me - unsticking the ‘mix motor’ gave me back full A/C on the front vents as well as defrost mode.
2. Back AC not working. There is a resistor pack behind a panel at the LH passenger footwell. You can buy this for $10 online, and if you are handy maybe even take it apart and replace the fried components. Transistor, resistor, or whatever. But for $10 I wouldn’t bother. Here’s a YouTube video which completely covers the fix.

BTW- The front and back have separate evaporators- so it’s possible for the front to work but not the back for other reasons. But the above is a cheap and easy fix if you can follow easy directions. If it fixes it, you save $100s compared with going to the “Honda Stealer”. Best of luck.
 

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2003 Pilot - No air from middle vents.

2003 Pilot - No air from middle vents.

I have cleaned the pollen filter, vacuumed out the filer compartment. Tried all modes including heat. Rear vents work, all front works, except for the 2 in the middle. Was hearing a fast clicking sound a while back and believe that has something to do with the issue. Looks like a flap is stuck in close position for the middle from vents. Any assistance would be appreciated. Thanks.
Hello, did you by any chance able to fix your AC problem? I have the same issue on my 2013 Honda Pilot.
 

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I have the same center vent not blowing problem and all I did was to unplug the damper actuator conector underneath the driver's side and plug it back in while ac was on. I had to do this twice but there was a battery swap in between if that makes a difference.
 

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I need help!

No air blowing out of my vents, ac or heat doesn't work. I hear nothing coming on. Is it my blower motor or resistor? i have a Honda civic 2004... i bought a ressitor and i installed it, no air came out, i think its the blower motor. Once i install a blower motor should the ac or heat come on or do i need to do something else?
 
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