Based on the factor endowment theory and the agriculture-induced technological innovation theory, this study examines the impact of high-standard farmland construction (HFC) on agricultural ecological efficiency (AEE) and sustainable agricultural development. Using empirical data from 30 provinces in China between 2005 and 2022, it explores how high-standard farmland construction techniques can enhance AEE, considering factor endowment preferences and geographical characteristics. Empirical research indicates that high-standard farmland significantly enhances AEE, particularly in the eastern region, the main grain-producing areas, and the regions with less geographical fluctuation. Additionally, agricultural innovations, capital accumulation, and land circulation reinforce the benefits of such construction, whereas labor mobility has a moderating effect. Quantile regression analyses show that the impact of HFC on AEE initially increases and then diminishes, potentially due to inadequate post-management and maintenance. Consequently, the study recommends that the government enhance policy support and supervision for high-standard farmland projects, integrate agricultural technology with capital accumulation, optimize human resource allocation, guide labor mobility, and reform land transfer systems to boost AEE and sustainability.