Some fallout for Android
Apple never really gave two figs for the JVM. It was always pretty shocking quality, always a version or two behind the official JVM. So in one sense it is not surprising to hear it is officially deprecated.
That said, there are plenty of apps which use JVM. Industrial strength apps like Eclipse for example. Eclipse is the development environment which most Android devs would use in order to develop apps so if Java were absent from OS X they wouldn't be bothered to develop there.
Of course what will probably happen is the OpenJDK will fill the hole instead. Ultimately OS X might actually get proper tier 1 support for Java rather than the half assed implementation its gotten so far.