An example method for diagnosis and throughput measurement of FC ports in a SAN environment is provided and includes generating, by a control processor at a generator in the SAN, a control packet requesting a link test to be performed with a reflector in the SAN, sending the control packet to the reflector through a media access controller (MAC) of the generator, receiving, at the MAC of the generator, an acknowledgement from the reflector indicating ability to perform the requested link test, generating, at the MAC of the generator, a test data packet for the link test, performing the link test with the reflector, and analyzing, at the generator, network parameters based on results of the link test.