This started happening since 1.4.0.
I have had to downgrade to 1.3.1 as this is a blocker.
We have 2 jobs for each repository.
The 2 jobs have the following Branch Specifiers:
Jenkins 1.613 is running on Amazon Linux Image. This issue seems related to the plugin itself rather than Jenkins, but please let me know if you need any more details if you cannot replicate.