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All the security issues regarding Java involve applets.
Offline, Java is used by applications installed in your operating system.
Apple continues to issues bug fixes for Java 6 on Snow Leopard, Lion and Mountain Lion.
On Windows, the Java runtime (JRE) may or may not be pre-installed, the decision is left up to the hardware manufacturer.
Microsoft used to maintain their own JRE on Windows but that fell by the wayside long ago.
In the old days Netscape had their own JRE as did IBM and others.
Just because a Java runtime is installed, does not mean that a web browser will actually use it.
A Java program can, in theory, run equally well on Windows, OS X and Linux. As long as there is a JRE for an operating system, Java programs can run on that system.To illustrate this, the main page of this site, the one with the online Java Tester, was viewed over 20 million times, since July 2008. Java is used both online and offline in Windows, OS X and Linux.The online use involves Java programs, typically referred to as "applets", embedded in a web page.Examples of these applications are below in the "Do you need Java" section. an installed application was addressed by Steve Gibson on the Jan 16, 2013 edition of his Security Now podcast (do a find for "Jared").
A component of Java has to be installed on a computer before Java programs can execute, either online or offline. It was initially referred to as the Java Virtual Machine (JVM), but now the more common term is JRE (Java Runtime Environment).On the server side however, Java has always been popular.