Kevin - aka Kriyamon,
hey man, one step at a time, and the answers will come. It can be a little difficult to isolate the actual problem, but it can be done, so don't be discouraged!!!
From what I gleaned from your posts, we can estabish
1) your BHR makes "thumping" or "clunking" noises.
2) your BHR squeeks from time to time, depending on activity.
3) the local and surrounding area - muscles, tendons, etc.- can get quite painful.
4) You aren't getting the answers you need/want.
I'm wondering if the pain would exist apart from the "thumping" you experience in your hip. As I've mentioned, I'm at just over 5 months post-op and I still get the "thump/clunk" thing, but minus the pain.
Are you able to separate the pain sensations from the noise? Or maybe they are related. I'm no Doctor, but you have to be able to articulate your symptoms very accurately to a Doctor, especially if he is far away.
Has your Doctor discussed with you the possibiliy of your muscles/tendons rubbing against the acetabular cup's edge? Apparently it doesn't take much for irritation and discomfort to happen. Keep pressing. Someone will have the answers. I am really surprized that your Doctor - the Doc who performed the surgery - isn't investigating (his work) further. Have you gone back to him again?