Hi XOMR,
Sorry to read you are suffering and in pain without the professional help of a doctor who truly knows how to effectively treat Cluster Headache sufferers.
You asked for a referral to a good doctor in the San Francisco/Oakland/East Bay, CA area. It just so happens that a little over one year ago, I compiled the most comprehensive list of all doctors familiar with Cluster Headaches throughout the USA and Canada.
Below you will find my list of doctors who are practicing throughout all of California. Separating just the Bay area was too difficult for me, as I am not overly familiar with the geography of CA.; so I am including my entire CA doctor list below. These doctors were all recommended by other CH sufferers residing in California.
ColtonDr. Douglas Hay
Beaver Medical Group
FontanaDr. Kerry C. Litman
Fontana Medical Center
FullertonDr. Jack Hugh Florin
Fullerton Neurology
La JollaDr. Frederick J. De La Vega
Coastal Neurological Medical Group
La MesaDr. Robert W. Hogan Jr.
Kaiser Permanente Medical Care
Dr. Yu Dennis Cheng
Er Kai Goa /MD Inc.
Los AngelesDr. Antonio De Salles
UCLA Neurosurgery Services
Dr. Stephen Graff-Radford
Cedars-Sinai Medical Center
Dr. Paul B. Kazimiroff
West LA Medical Center
Dr. Alan M. Rapoport
UCLA Neurological Services
Mountain ViewDr. Lidia K. Brown
Hand Surgical Associates
Dr. Kenneth S. Peters
Peters & Scopps MD
Newport BeachDr. C. Phillip O'Carroll
Newport Beach Neurology
Hoag Neurosciences Institute
Palo AltoDr. Sheena K. Aurora
Stanford University Medical Center
ReddingDr. Hamid Rabiee
Eureka Way
Redondo BeachDr. George J. Rederich
Rederich & Ullman MDs
SacramentoDr. Nazhiyath Vijayan
UC Davis Medical Center
San DiegoDr. Gene "Rusty" A. Kallenberg
UCSD-Family Medicine
San FranciscoDr. Peter Goadsby
UCSF Medical Group
Dr. Jerome Goldstein
Hyde Street
Dr. Neil Raskin
UCSF Headache Center
San JoseDr. Jerwin Wu
Forest Avenue
San RamonDr. Kulveen Sachdeva
Norris Canyon Road
Santa MonicaDr. David B. Kudrow
CA Medical Clinic for Headache
Dr. Alan M. Rapoport
CA Medical Clinic for Headache
StanfordDr. Sheena Aurora
Stanford University Medical Center
StocktonDr. Kevin S. O'Dell
Kaiser Permanente Medical Group
This completes my list of California doctors who have all been referred/recommended from fellow Cluster Headache sufferers.
Wishing you and every CH'er in California good luck finding a doctor you are pleased with!

-Gregg in Las Vegas