Jay. Are we talking about a plain tube in which the shaft runs in, or are we taliking about a tube with bearings in both ends that the shaft runs in?
If it is a plain tube, it WILL be noisy and thats that. If it has bearings, these might be a bit loose, either in the tube perhaps or they just have too much clearance for the shaft and so it wobbles.
It is worth checking that your shaft is dead straight and not bent, by rolling it on a flat surface.
Lastly, your prop may be out of balance. I have had two noisy boats, and they reduced to silence on changing the props..
Ashley