Glad that the noises are getting fixed. I've found two other sources of "front end" noises on our WM.
The first was that the suspension place that replaced all of the front end bushes a while ago put the new front sway bar struts on the wrong sides. On the VE, they are a left and right set, not identical, even though they look almost identical. I suspect the range of movement in the rod ends is different between the left and right struts, causing them to clunk if they are put in the wrong side. I put up with it for a while as the suspension place kept saying that it was the urethane D bushes they fitted (even though I asked for rubber ones) and they regreased them a few times. When it got too annoying I bought new sway bar struts, and while taking the old (still newish) ones off, I realised that the part numbers didn't match the new ones. Yep, the right side had been installed on the left, and left side had been installed on the right. Oh, they fractured one of the D bush mount studs too, and it fell off soon after getting the suspension work done. It was the stud that is welded onto the crossmember. I was quoted $800 to get it fixed by replacing the whole crossmember. Nup. Drilled it out from underneath with the car up on jack stands, tapped and threaded the hole and screwed in a grade 8 bolt in its place - good as new. Fiddly job, but cheaper than $800.
The second was the gearbox mount. I could hear a fairly loud clunk when driving, but only when the car was cold. I too went looking for a lot of causes of the noise before I found it, replacing a fair bit of stuff. I eventually found it by pushing hard up against the front of the tailshaft. That pushed the transmission up, and caused a loud clunk. when I replaced the trans mount, the noise disappeared. I think the mount had softened with age, and the metal part of the mount that bolts to the trans was hitting the metal part of the mount that bolts to the crossmember. It was quite a loud clunk - it sounded like the transmission was actually hitting the floorpan, but it wasn't.
I hope this helps others out.