By the time the original Africans had passed away, the Felid TAG had firmly settled on its focus on Amur leopards (TAGs and RCPs weren't as much of a factor in consideration in the mid 1990s, when the Africans were imported), and Baltimore made the decision to switch over to that subspecies, as basically all other zoos have done. The realization had settled in that, if zoos were going to maintain sustainable populations of some species/subspecies, that meant they couldn't keep everything, and when it came down to Amur vs African leopards, the decision ended up not being a difficult one. A critically endangered subspecies already established in AZA, vs a much more common one that was not, and would require large scale imports and a reduction in the amount of holding spaces available for Amurs.
I will say that, within the zoo community, this leopard subspecies issue is not something that keepers, curators, etc really spend anytime agonizing or worrying about, or have doubts about. You need a leopard, you use an Amur, and if it's for an African area, than you use an Amur as a stand-in. The alternative is either to go through a lot of expense to import Africans, and to what end, really (a lot of money and effort spent for an animal that will have no positive impact on the AZA leopard population), or not have leopards in African areas, which will greatly reduce the numbers of one of the TAGs flagship species.
So from that viewpoint, it's not bizarre that San Diego (or Kansas City... or Baltimore... or Nashville, in their upcoming exhibit) decided to go with Amurs. I doubt that there was any internal debate or controversy over it.