My comp wasn’t taken apart during the motor work. R and R cycle did mention on washer/spacer but when I brought it in to them their tech must have been in a rush and never did it. Have people had success with this?
He may have been referring to the flat needle bearing "washer" Harley uses on the latest compensator version instead of the old simple thrust washer. The new part tends to be noisier than the old simple washer, and many folks have changed back to the older part. However, if your bike didn't have this knocking problem before the work was done, and if they didn't take the compensator bolt out, I don't see how the thrust washer could be your problem. You need to verify if they changed the washer or not, if they did then in fact they had to remove the crank bolt and it's possible they didn't remove all the old thread locker as mentioned previously.
Another issue I've seen mentioned after having engine work done is the tune. If the idle is too low and/or rough, it can cause a knocking type of noise in the primary or trans at idle.
Jerry