The study aimed at availability of petroleum products in Nigeria through the operation of enhanced modular refinery process due to inefficient conventional major refineries. The enhanced modular refinery converts or processes residue product from conventional modular refinery as feedstock to the hydrocracker reactor for viable and desired products such as liquefied petroleum gas, naphtha and diesel. Therefore, twenty Nigerian crude oil types were classified as sweet, light and medium crude oil, and these crude oil types were categorized based on their recovery volume at true boiling point of 370oC as Group A, Group B and Group C respectively. Thus, based on product output and equipment cost, a modular refinery with 29 trays was used in this study, as light and medium sweet crude oil types were simulated in a modular refinery of various column trays prior to the desired tray. A topping plant with a 30,000 barrel per day capacity and a modified topping plant with 29 trays respectively were used to process different types of Nigerian crude oil. using Aspen Hysys to evaluate their products yield and tray compositions. The modified modular refinery with hydrocracker yielded more valuable from the residue of conventional modular refinery with minimal bottom fraction. Performance models for hydrocracker reactor was developed based on the nature of reaction, kinetic parameters estimated and results compared with experimental data with minimum deviations. The developed performance models predicted feedstock conversion and product yield along the hydrocracker reactor’s dimensionless length by solving a set of ordinary differential equation models. Thus, the hydrocracking process was simulated to evaluate the effects of catalyst effectiveness factor on feedstock conversion and products yield.