I'm facing a similar issue when adding configurations to existing matrix job.
Here is the details of the issue as reported on the mailing list.

I have made some changes in matrix jobs. I have added new configuration to a user defined axis.
The matrix job run properly and I could see that new configuration was build properly :

  • The parent jobs console log says " newconfiguation completed with result SUCCESS"
    I can go to the the new configuration web page, see the logs and the artifacts.
    Looking at the matrix, the bullet corresponding to the new configuration is blue !

After some time ( less than 2 hours) the result from the build is lost.
The bullet corresponding to the new configuration is grey and indicates NOT RUN when I pass the mouse over it.
So I cannot click on the bullet to see the build.

If I go back to the parent job console, I can click on the "newconfiguation completed with result SUCCESS" link.
I get a web page, where everything is empty : no Build History, empty change log, no artifacts.

I run the job again . Can see the newconfiguration build. Some hours later , everything is gone again.

Looking on the master node , in /va/lib/jenkins/jobs, I can see
/var/lib/jenkins/jobs/job_name/configurations/../axis-xxx/newconfiguration/
I this folder everything looks fine : "builds config.xml lastStable lastSuccessful"
In lastSuccessful I can see the log, the build.xml.

Cf this topic on the mailing list:
https://groups.google.com/forum/#!topic/jenkinsci-users/uBdlIp69uhQ

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