Nancy,
If you started out with a low grade Ta tumor, BCG doesn't work for these very well, if at all. BCG does work very well at controlling CIS and high grade tumors though. Sending the path slides to Johns Hopkins is about the smartest thing your dr can do.
CIS can be missed very easily, it is often invisible. Maybe it's been there all along, or maybe you've experienced a progression in grade (have you read 'staging'?
blcwebcafe.org/staging.asp
). If BCG doesn't stop the CIS at the 3 month follow up then you are at a high risk for progression in stage as well...if you're clear at 3 months and 6 months, maintenance might keep you clear for a long time, maybe even forever. It's worth a shot but no guarantee.
The path report seems to be saying that no muscle was present in the specimen, meaning the biopsy was sub-optimal. I think! You need to clarify this. Perhaps it's saying that there was no cancer seen in the muscle (that would be ideal).