Welcome to the Forum, though I am sorry that you need to join us.
While the urologist's notes are indicative of a problem, you really won't know what you might be facing until you get the path report and discuss with the doctor what his treatment recommendations would be. I am sort of amazed that an assistant would be giving you ANY information at this point...where was the doctor?
After you get the results and have your "chat" (with the doctor, I would hope) you will need to assess your options and decide whether to get a second opinion. Since you are in the Bay area you have at least two great options. Stanford recruited Dr. Ella Skinner a few years ago and she is reputed to be great, and there are other good people in her department. UCSF is also very good.
To get a second opinion, you just inform the appointment people that this is what you want when you make the appointment. They will be able to tell you the procedure for getting your records forwarded to them....it usually requires a written request from you to your current doctor.
The second opinion will do one of several things. It can confirm that your current doctor is "right on" with the diagnosis and treatment plan and you may decide to stay with him/her. It may tell you that the plan if fine, but you may feel more comfortable with the new doctor and this would be the time to change, if that is what you decide. Or it may tell you that there are other options that your current doctor has not proposed.
Finally, let me reassure you a bit. I also was diagnosed with papillary as well as CIS. That was over 8 years ago....I had BCG treatments and now have no signs of cancer!!
Good luck to you.
Sara Anne