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JDT launching sets a default value for the Java builder's output folder file filter preference (i.e. it sets it to *.launch). If more than one client wants to set the default value they could step on each other. A simple extension point allowing the contribution of default filters could solve the problem. (Or please let us know if there is some other solution that we should be using). This bug was created as a follow up to bug 255381 and bug 260445.
This could also help bug 276478.