Mac OS X has the CA keystore in /System/Library/Frameworks/JavaVM.framework/Home/lib/security/cacerts. This keystore seems to be overwritten by every Java update, which is very
It seems things have changed in Mac OS X 10.6.8 Snow Leopard. Now /System/Library/Frameworks/JavaVM.framework/Home/lib/security/cacerts is a symlink to /System/Library/Java/Support/CoreDeploy.bundle/Contents/Home/lib/security/cacerts, which won't change on updates, if we're lucky.