Exploration and development of novel chromatographic stationary phases is an effective way to improve the separation efficiency of geometric isomers with similar physicochemical properties. Covalent organic frameworks (COFs) are a new class of porous organic polymers that show a wide range of applications in the field of separation science due to their tunable geometries and functionalities, infinitely extended network structures, and abundant interaction sites. However, the common imine-bonded COFs are poorly resistant to hydrolysis in HPLC. In this work, 2,4,6-trimethyl-1,3,5-triazine (TMT) and 1,3,5-tris (4-formylphenyl) triazine (TFPT) were used as raw materials, a sp2 carbon-conjugated covalent organic framework (sp2c-COF) was synthesized through self-assembly monolayer-assisted surface-initiated Schiff-base-mediated hydroxyl-aldehyde condensation reaction, and loaded on the surface of silica substrate with a CN bond to obtain a new segregated material (SiO2@sp2c-COF). SiO2@sp2c-COF was used as a high-performance liquid chromatography (HPLC) packing material for the separation of geometric isomers. Benefitting from its superb in-plane π-conjugation, highly ordered and robust framework structure, high chemical and thermal stability of sp2c-COF, and the unique hydrophilic covalent triazine groups, hydrophobic benzene rings and other groups that can provide a variety of interactions such as hydrophobicity, π-π stacking, hydrogen bonding and hydrophilicity of the prepared SiO2@sp2c-COF stationary phases, they exhibit excellent molecular shape selectivity and resolution in separating geometrical isomers. These geometric isomers include isomers such as polycyclic aromatic hydrocarbons (PAHs), tocopherols, carotenoids, diethylstilbestrol, 1,4-cyclohexanediol and astaxanthin. Compared to commercial C18 columns, this column has more flexible selectivity and higher separation performance. In addition, due to the introduction of hydrophobicity, π-π stacking action and hydrophilic triazine components, the SiO2@sp2c-COF stationary phase also has RPLC/HILIC mixed mode characteristics. Baseline separations of monosubstituted benzenes, alkylbenzenes, positional isomers, sulfonamides, benzoic acid, anilines, nucleosides and nucleobases compounds were achieved on SiO2@sp2c-COF packed columns. This successful application highlights the great potential of sp2c-COF for the separation of geometrical isomers, and provides a way to overcome the stability of common imine-bonded COFs materials in HPLC, as well as to compensate for the shortcomings and deficiencies of a single chromatographic mode in the separation of complex samples. Furthermore, this is the first report of a practical separation of important geometrical isomers using sp2c-COF materials.