The posted stack trace indicates that a RuntimeException was encountered in a Daemon thread. This is typically uncaught at runtime, unless the original developer caught and handled the exception.
Typically, the debugger in Eclipse is configured to suspend execution at the location where the exception was thrown, on all uncaught exceptions. Note that the exception might be handled later, lower down in the stack frame and might not lead to the thread being terminated. This would be cause of the behavior observed.
Configuring the behavior of Eclipse is straightforward:
Go to Window > Preferences > Java > Debug and uncheck Suspend execution on uncaught exceptions.