This five-year study (2016–2021) in Morocco’s Mediterranean climate investigated the effect of nitrogen fertilization and genotypic selection on wheat yield and associated components. Utilizing a split-plot design, the study assessed five wheat genotypes—’Faraj’, ‘Luiza’, ‘Itri’, ‘Karim’ and ‘Nassira’—under three nitrogen application rates (120, 60 and 0 kg/ha) across thirty plots with two replicates. Interactions between nitrogen and year showed marked significance in yield (p = 0.001), biomass (p = 0.002), TKW (p = 0.003) and Spk/m2 (p = 0.001), underscoring the variability in optimal nitrogen application rates across different years. Additionally, significant interactions between variety and year were observed for biomass (p = 0.001) and G/m2 (p = 0.001), indicating variability in the performance of different varieties across years. The ‘Itri’ genotype showed the highest yield in 2017, while ‘Luiza’ was pre-eminent in 2018, with ‘Itri’ producing the most biomass. ‘Faraj’ demonstrated consistent superiority in yield and biomass during 2019 and 2020. Our integrated principal component analysis and quadratic models elucidated that an intermediate nitrogen rate of 60 kg/ha (N2) was particularly advantageous for the ‘Faraj’ and ‘Karim’ genotypes. These findings highlight the substantial impact of informed nitrogen level adjustment and genotypic selection on yield optimization.