This disclosure relates to method and system for certificate-less security management of interconnected hybrid resources. The method includes selecting at least one hybrid resource from a plurality of hybrid resources in network to install pre-calculated security configuration. The method further includes receiving a One Time Password (OTP) valid for pre-configured time period, in response to an identity generation request for a hybrid resource; installing security data payload including the OTP and the pre-calculated security configuration, in the hybrid resource; receiving an identity issuance request from the hybrid resource through a secure channel upon installation of security data payload in the hybrid resource; assigning unique identity to the hybrid resource upon successful validation of the OTP received in identity issuance request; and generating, upon assignment, metadata corresponding to the hybrid resource for a security association map (SAM) associated with the hybrid resource.