Don't beat yourself up about this, I'm sure if I was in your shoes, even knowing all of the terrible things Antibiotics can cause I would have let the doctors do this. The fact is Antibiotics save lives and sometimes its the only thing you can use. I'm sure this didn't help matters but Antibiotics can never destroy all the good flora, all the good stuff is still there, they just throw everything out of balance. You just have to try the best you can with diet to let things come back into balance on their own.