MultiLogCTVerifier presently enumerates all of the logs when validating SCTs, adding each verified SCT to the CTVerifyResult's set of SCTs.
CTPolicyEnforcer's measure of uniqueness does not count whether or not the logs are diverse, allowing for the case where one could embed 1 SCT from a Google log, and obtain three distinct SCTs from the same log (by repeatedly logging the certificate).
Alternatively, you could meet the count (of 2 SCTs) by providing two different SCTs from the same log via TLS extension.
Comment 1 by bugdroid1@chromium.org
, May 4 2016