Standard Huangqi (Astragalus membranaceus (Fisch) Bge. Var. monghlicus (Bge.) Hsiao) and its counterfeit Ciguogancao (Glychrrhiza pallidiflora Maxim.) can be discriminated and identified by using multi-steps infrared maro-fingerprint method. In the 1D-IR spectra, the peak intensity at 1 737 cm-1 for Ciguogancao, which is the stretching vibration peak of CO, is much stronger than that of Huangqi. It’s proved that the organic ester compounds in Ciguogancao are much more than Huangqi. In the secondary derivative spectra, it’s easy to find the fingerprint characteristic peaks of CaC2O4 in the infrared spectra of Ciguogancao, but not in that of Huangqi. Besides, both secondary derivative spectra also have main characteristic peaks, which are the skeletal stretching of aromatic, round 1 463, 1 511 and 1 596 cm-1, but Ciguogancao aslo has one shoulder peak at 1 453 cm-1. In the 2D-IR spectra, both have three auto-peaks at 1 070, 1 095 and 1 140 cm-1, which are the auto-peaks of glucoside, but the strongest auto-peak of Huangqi is at 1 140 cm-1 and that of Ciguogancao’s is at 1 090 cm-1. The spectra testified that the organic ester compounds, aromatic compounds and glucoside compounds in Huangqi and its counterfeit Ciguogancao were different. The method not only can identify standard Huangqi and its counterfeit Ciguogancao rapidly, but also provides useful information about the differences in organic ester compounds, aromatic compounds and glucoside between Huangqi and its counterfeit Ciguogancao. It’s proved that multi-steps infrared maro-fingerprint method can be used to analyze and distinguish Huangqi and its counterfeit Ciguogancao.