This work presents a multi-scale analytical and computational approach designed to predict the hygro-thermo-mechanical vibrational response of laminated composite structures reinforced with multi-walled carbon nanotubes (MWCNTs). Employing the modified Halpin-Tsai model, this study estimates the elastic properties of the MWCNT-enhanced epoxy matrix, incorporating the impacts of MWCNT agglomeration, orientation, waviness, and size-dependent characteristics. Additionally, the Chamis micromechanical model is utilized to ascertain the independent elastic constants of the nanocomposite lamina, considering environmental variables such as temperature and humidity. Subsequent analysis involves the determination of natural frequencies for both pristine and MWCNT-integrated laminated composite structures via the Finite Element Method (FEM), addressing various design-related parameters. This investigation further explores the macroscopic influences of MWCNT incorporation, boundary condition and layup scheme, along with the temperature, moisture content, and the nanoscopic impact of MWCNTs on the natural frequencies of laminated composite plates. The obtained results of the proposed multiscale modeling are compared with experimental and theoretical observations. It has been demonstrated that while the incorporation of carbon nanotubes (CNTs) can enhance the mechanical properties of nanocomposite laminae, the natural frequencies of these nanocomposite plates are adversely affected by variations in temperature and moisture content. Furthermore, the findings indicate that the microstructural characteristics of CNTs play a crucial role in determining the efficacy of the reinforcement phenomenon. The developed multi-scale methodological framework offers significant potential for the design and optimization of MWCNT-based composite structures across diverse industries, including automotive and aerospace sectors.