Easiest way to think of it is, there never was a 'fender japan' there is a company named Kanda Shokai who built instruments at various plants and licenced the fender name and likeness for said products.
Those various plants will still continue to build instruments and already do for several other brands, some of which look similar to fender products.
It's not the end of anything, it's just kanda Shokai won't be building fender licenced products any more.. I mean, none of you care about the label on the headstock right?!