Baseballfan,
Thanks for the post. Sorry to read of your ordeal.
An increased peak velocity indicates flow acceleration across an orifice, in this case the outflow tract. An acceleration occurs when narrowing is present, as can happen with HOCM. The presence of an obstruction often indicates that a mechanical repair, like surgery or alcohol ablation, may help relieve the symptoms caused by obstruction -- these symptoms may include shortness of breath, fatigue, swelling, passing out, and others. However, in patients with HOCM, these symptoms may be caused by a weakened (albeit thickened) heart muscle. So while many people may experience symptom relief, there certainly is no guarantee that a mechanical relief will help.
I don't know why the dobutamine would reveal the gradient but not the amyl. One possibility is that the amyl was not able to induce a hyperdynamic response because of the atenolol, while the dobutamine was able to saturate the beta-receptors, and thus overcome the beta-blockade.
This new information might be useful to your doctors here at the CCF. Consider coming back.
Good luck.