With the exception of the bomb Tibbets had sent the B-29’s to pick up, it is likely the targets for the remaining atomic bombs wouldn’t have been cities. (There weren’t that many left intact anymore.) That bomb was likely destined for Kokura which was actually the primary target for Bock’s Car. The remainder very well might have been used in the tactical role rather than the strategic role.
Of course with taking out those two cities we had taken out much of Japan's ability to rebuild.
The other three cities that were considered for atomic bombing were Kyoto, Kokura and Niigata.