Circularly polarized light can present more optical properties of chiral materials and is widely used to analyze and detect biomolecules. In this paper, a dual-frequency terahertz circular polarization detection structure, which is based on multilayer metamaterials, is proposed. The proposed structure consists of a dual-frequency quarter-wave plate, a polyimide spacer, and a filter. The simulation results show that the structure can distinguish the handedness of circularly polarized light by filtering. The extinction ratios are 4 dB and 5.26 dB at 0.952 THz and 1.03 THz, respectively, and the maximum transmittance efficiency reaches 40%. Given the advantages of easy integration and dual-frequency operation, our design is bound to facilitate the development of multi-frequency detection in biomedical imaging devices.