depo sometimes can cause menstrual irregularity which will usually subside soon, but as the symptoms prolonged in your case that led to stoppage of that method, if you need you can go for some other method of contraception
like pills etc,
during periods some women experience body pains, swollen genital parts, bloating
these are self limiting usually, so need no to worry.
if that is creating problem with your day to day activities you can once consult gynecologist to get examined.