If the base metal being welded is listed in MIL-STD-1628 (I think the is the correct reference for the design of fillet weld), one only has to qualify the fillet weld.
If the base metal isn't listed in 1628, one must qualify the PQR using a grooved assembly to establish the mechanical properties. I would recommend qualifying the fillet weld to ensure proper fusion can be attained in the root of the T-joint.
Al