Cystectomy is a surgical procedure that is done to remove a cyst (fluid-filled sac) from any part of the body. Ovarian cystectomy is a procedure to remove a cyst from your ovary. Smaller sized ovarian cyst is a common occurrence that does not usually cause symptoms. Therefore, there is not usually any need for treatment. However, larger type cyst like an endometrial cyst or a chocolate (blood-filled) cyst need to be removed.