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Well I already knew that the problems involved the checkouts field being null. The question is how this happens, since both build.xml files contain a definition for this field. That is why I want to know if there is some way to reproduce the problem from scratch, so I can actually debug it.
The only noteworthy difference I see between the two files is that JENKINS-26761-build-1.xml lacks a queueId. This field was added in 1.601, matching your comment that you upgraded to 1.602 at some point. Anyway it is unlikely that has any relationship.
I can easily suppress the exception; the underlying bug would remain, and polling would not work on this job.