Silly question but did you check and/or replace the front/rear differential bushings?This is a saga that doesn't want to end. For a recap the noise is a metallic/binding "click-clack" noise (no grinding) that happens with each tire rotation but ONLY when accelerating and appears to come from under the drivers feet or center console area. The harder the acceleration the louder the noise and there is a slight vibration that I think is associated with it. The noise is not RPM or gear dependent. As I accelerate with the transmission shifting and rpm's changing the noise does not change. Above 40 mph it doesn't seem really noticeable because the tires are rotating fast enough and wind noise but I can still feel the vibration when I accelerate. The noise started after the lift and has grown slightly louder over time. At this point I am literally about to attempt an action movie scene where I hang from the bottom of the car while someone accelerates so I can pin-point the noise (not really but I'm definitely frustrated).
Initially I replaced the front CV axles with Cardon Select reman's and when that didn't work I installed a new front driveshaft but it also made no difference. So next I thought maybe transfer case chain or internal bearing/bushing so I swapped the transfer case for one with only 84k miles. The noise persisted un-changed! Next I thought maybe the original 12 year old rear drive shaft had a bad u-joint I couldn't feel so I replaced it with a new steel driveshaft with serviceable u-joints. The noise persists but slightly louder now!! Finally I thought maybe rear diff ring gear issue because two things 1) now that the noise is slightly louder maybe the new steel shaft is resonating noise from the rear diff more than the aluminum and 2) the noise occurs with each tire rotation, not driveshaft rotation. But since I don't have any differential experience I decided to take it to a 4x4 professional for a diagnosis. He blew away my theory and said front CV axles, even though i replaced them 5k miles ago (I told him this but he persisted). Sooooo I went out and bought new not reman front CV's and dug into replacing them along with my LCA's since the bushings were looking a little old. The noise persists but even louder now!!!
The transfer case and front differential changes didn't change the noise level or frequency at all. The only things that have affected the noise (by making it louder) was the rear driveshaft and new front CV axles, otherwise everything I have done hasn't affected the noise at all. At this point the noise is louder than my new Magnaflow exhaust.
So far I have done the following:
2" RR lift w/ Bilstein shocks (21.5 hub center to flare)
OEM LCA's w/ new bushings
OEM sway bar links
Moog Sway bar bushings
Timkin front L/R hubs
NEW Carquest front L/R CV axles
Low mileage front differential w/ new bushings (Amsoil fluid+mopar additive)
New front driveshaft
Low mileage transfer case (Mopar fluid)
New rear steel driveshaft
Rear differential Amsoil fluid+mopar additive