My interpretation based on what little I know about Japan is that there may be an opportunity to restore otter populations, if people wanted to do that. The Japanese endemic population of the otter is gone, and that is genuinely sad, but the Eurasian otter in Europe at least has substantial gene flow between populations. If the same is true in Asian otter populations then there may be otter populations somewhere in the vicinity of Japan that would make genetically appropriate stock for reintroduction. The population of Japan is stable and shrinking. I don't know if this translates to ecological restoration of rivers to water and habitat quality appropriate for otters, but if it did and there is a significant fan base for otter restoration in Japan then maybe a new Japanese otter population could be formed (albeit not the same genetically as the original).
Otters, beaver, deer, several waterfowl species, black bears, coyotes, and grey wolves were all functionally extinct from large parts of their range in North America in the first few decades of the 20th century. All of these species have made or are making come backs to much of their former range. I say this not too be Pollyanna-ish and deny your points nanoboy, because you make important points. There are models for un-screwing up some of the natural world however - if we choose to do so.