In one embodiment, a device in a network receives traffic information regarding one or more secure sessions in the network. The device associates the one or more secure sessions with corresponding certificate validation check traffic indicated by the received traffic information. The device makes a self-signed certificate determination for an endpoint domain of a particular secure session based on whether the particular secure session is associated with certificate validation check traffic. The device causes the self-signed certificate determination for the endpoint domain to be used as input to a malware detector.