30 y/o female history of ehlers-danlos syndrome hypermobility, cholecystectomy, appendectomy and rectal bleeding. is it common to manipulate colonoscopy and hemorrhoid banding tools via the vaginal canal? i'm having vaginal pain post these procedures?

You may have a referred pain, those procedures do not involve the vagina. However, if you observe discharge or blood coming out from the vagina along with the pain, you should see a GYN doctor. Rarely, a procedure done in the rectum can damage the genital organ in front of the rectum. i.e. the vagina, due to their anatomic proximity but I doubt with just hemorrhoid banding.