There is no restriction on back grinding the stop to a feathered edge and backing your SAW unit (gantry or pull-thru) up and running back over that stop for your restart.... The restart does not have to begin on the exact point of stoppage.
I feel your pain... You probably have GMAW WPS's to deal with the gaps in between SAW fillet stops and starts... (We do )..
I actually wrote and got approved a CWB performance qualification test that excluded starts and stops on the fillets because our process was simply not designed for that.... The AWS is not as willing to approve alternate performance tests (meaning they won't at all).