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I have reproduced the error again:
Job A has been started by manually and executed.
After execution it triggered ((placed to the queue) another 3 build jobs.
At the same time other 5 build jobs have been triggered (placed to the queue) by SCM, 4 of the last 5 jobs are downstream to the first 3 build jobs but one independent (does not have upstream job at all)!
No job except job A has been processed. all other are in the queue for ever.
By the way there are multiple strange log entries in jenkins.err.log like the following