CdotS;
In my opinion, metallographic examination provides a key source of information as you indicated. I would caution you that there are no simple rules to say that if the crack is transgranular it is.... or intergranular it is.... Transgranular cracking could be related to loss of ductility, quench cracking, hydrogen embrittlement, etc. Etching of the microstructure with the crack provides valuable information to determine if the crack occurred during heating, or during quenching, and of course during post heat treatment forming (based on the presence or lack of oxide along the crack interface, and the appearance of the surrounding microstructure (evidence of decarb)).
Intergranular cracking can be related to hydrogen embrittlement, reheat cracking and yes, even quench cracking in certain situations. This is why metallographic examination coupled with the SEM go hand-in-hand for root cause analysis.
I agree with swall that you could probably rule out hydrogen embrittlement, based on what you stated for your HT process. However, other factors are not as obvious for certain steels.