A method for controlling an electric oil pump (EOP) of a hybrid vehicle may include determining whether or not the hybrid vehicle is in a decelerating situation in an EV mode, driving the EOP at an RPM at a point L, corresponding to a minimum RPM of the EOP to form a target line pressure of a transmission, upon determining that the hybrid vehicle is decelerating in the EV mode, determining whether or not an RPM of a turbine is equal to or greater than a predetermined reference RPM, and driving the EOP at an RPM acquired by adding a predetermined additional RPM to secure an additional flow rate of automatic transmission fluid supplied to a balance chamber of an engine clutch to the RPM at the point L, upon determining that the RPM of the turbine is equal to or greater than the predetermined reference RPM.