The invention discloses a two-dimensional code processing method, device and system, and relates to the technical field of information processing. The main purpose is to solve the problem that the electronic certificate security is leaked once an electronic certificate is stolen in a copying or shooting way since the generation of the electronic certificate is dependent on a static random code in the prior art. The technical scheme corresponding to the invention comprises the following steps: a server receives an electronic certification acquisition request sent by a client, and the electronic certificate acquisition request comprises a user identity label; the electronic certificate corresponding to the user identity label is acquired, and a server private key is used for signing the electronic certificate and a user public key of the client, thereby obtaining server signature information; the server signature information and the electronic certificate are sent to the client so that the client can verify the server signature information conveniently, and generates a two-dimensional code according to the electronic certificate, and a certificate verification end verifies the electronic certificate contained in the two-dimensional code, wherein the certificate verification end is used for generating the electronic certificate according to the user identity label.