The present invention describes a method for refining highly polyaromatic and nitrogenated charges, such as LCO streams, comprising hydrotreating (HDT) as the first reaction stage, followed by the intermediate separation of gases generated in the HDT section, then by a second reaction stage consisting in moderate hydroconversion/hydrocracking and in a rectifying and/or fractionating section, thus allowing more flexible production of fuels. In the rectification mode, the claimed method yields a diesel oil fraction with higher cetane content, reduced density and volumetric yield increase of at least 111% relative to the process charge, thus minimising yield losses through naphtha overcracking and contributing to the optimisation of the required hydrogen consumption. In the fractionating mode, different cuts and their compositions can be produced, such as naphtha, kerosene and diesel.