Provided are a method and apparatus for verifying a radiation beam intensity modulator. The apparatus includes a scanner; and a verification system verifying the verification target radiation beam intensity modulator, wherein the verification system includes: a modulator structure reconstruction unit extracting thickness information of the verification target radiation beam intensity modulator based on the 3D structure information of the verification target radiation beam intensity modulator; an original modulator structure information receiver receiving structure information of the original radiation beam intensity modulator; a modulator matching unit matching the verification target radiation beam intensity modulator with the original radiation beam intensity modulator based on the thickness information; and a modulator verification unit verifying the verification target radiation beam intensity modulator matched with the original radiation beam intensity modulator.