Introduction: Anti-aging peptides, such as dipeptide KT, are promising rejuvenating agents and have recently received significant attention. However, their hydrophilic nature makes skin absorption therapeutically inadequate. The excessive hydrophilicity of peptides is partially solved by lipoidal conjugates, however, the increased molecular weight due to conjugation creates a new obstacle to skin permeation. Methods: In an attempt to concurrently solve these limitations, here we have studied different short-mid chain fatty acids (C6-C18) conjugates of dipeptide KT. Different fatty acid chain lengths of C6, C8, C10, C12, C14, C16, and C18 were considered to be conjugated with KT and screened in-silico. Of those, C8, C10, and C12 were preferred and synthesized alongside two controls of the parent drug (KT) and C16 (Pal-KT) as the commercialized form to be studied mechanistically. Subsequently, they were structurally characterized and underwent preformulation, supramolecular investigations (e.g., thermal behavior, solubility, surface-acting, crystalline structure), and skin absorption studies. Results: Data showed that the synthesized conjugates substantially outperformed Pal-KT in terms of molecular weight, lipophilicity, melting point, and aqueous solubility. In addition, unlike KT, they all demonstrated amphiphilicity-related features. The maximum and minimum skin permeation were assigned to C8-KT (33.2%) and KT (0.004%). Moreover, permeability coefficients (Kp) of the C8-KT, C10-KT, C12-KT, and C16-KT were calculated to be about 22000, 3800, 3400, and 1600 times higher than KT, respectively. Conclusion: Conjugate selection with lower molecular weight fatty acids and optimal lipophilicity can positively affect the molecular properties, skin absorption, and the ability to form supramolecular structures and consequently pave the way to ‘better’ anti-wrinkle products and formulations.