Boy, I cannot help you. My truck is nearly the same as yours (it's a 2005 4x4) and I never experienced any kind of strange noise on the stock tow tune with the stock intake. (Nor have I with custom tunes and the Gotts intake version.)
I have to ask this, so just bear with me; that sound does not exist at all using the stock (Level 0) tune, right? And, if you want to "experiment" do you get it using the Level 1 "transmission tune"? If you're negative on both those, then I'd have to say it's some kind of effect caused by the change in fueling/timing in the canned Level 2 tune. I cannot see it being harmful, and suspect it will be eliminated with a custom tune.
- Jack
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2024 F150 Platinum SCrew 3.5L PowerBoost FX4, Peragon Tonneau Cover, LineX Bed, 35% Window Tint on All Sides and Rear, Full Nose Paint Protection Film, Husky Mud Guards, Lasfit Floor Liners, VIOFO Dash Cam
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