Controlled delivery of target molecules is required in many medical and chemical applications. For such purposes, metal‐organic frameworks (MOFs) with high porosity, large surface area, and tunable functionalities are promising carriers. Herein, Quercetin (QU), as an anticancer drug, was loaded on Cu2(BDC)2(DABCO) and Cu2(F4BDC)2)DABCO) MOFs. As these Cu‐MOFs have a high surface area, a suitable pore size, and biocompatible ingredients, they can be utilized to deliver QU. The loading efficiency of QU in these MOFs was 49.5% and 41.3%, respectively. The drug‐loaded compounds displayed sustained drug release over 15 days, remarkably high drug loading capacities and pH‐controlled release behavior. The prepared nanostructures were characterized by different characterization technics including FT‐IR, PXRD, ZP, TEM, FE‐SEM, UV‐vis, and BET. In addition, MTT assays were carried out on HeLa and HEK‐293 cell lines to investigate cytotoxicity. Cellular apoptosis analysis was performed to investigate the cell death mechanisms. Grand Canonical Monte Carlo simulations were conducted to analyze the interactions between MOFs and QU. Moreover, the stability of MOFs was also investigated during and after the drug release process. Ultimately, kinetic models of drug release were evaluated.