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The issue is as follows:
First JNLP NIO creates a Channel A.
Then AbstractMavenProcessFactory.newProcess creates a new Channel B by invoking the following:
The problem is, if Channel A abruptly terminates, Channel B will be stuck in all currently pending read operations (see stack traces above). The only way to terminate those read operations is to interrupt the threads that are blocked in said reads. The only way this can be achieved now is through a manual job abort (or, presumably, a Build Timeout plugin).