Documentation for JIRA 5.2. Documentation for other versions of JIRA is available too.

First of all, as mentioned in the KB: Custom Field Not Appearing in Issue Navigator Search Criteria , you HAVE to associate the custom field to ALL issue types. However this will cause other projects to have the unnecessary custom field in their project. There is workaround to hide the unnecessary custom field from these project so it won't appear.

The Desire Result

  •  With this setup, issue navigator result will show the custom value in the right project even by searching all issue types.
  •  This custom field will not shown in other projects visually, ie. hide it.

Steps to do that

Steps:

  1. Create a screen which does not contain the custom field which you don't need. /Copy the current create issue screen and remove the custom field. Let's say 'TestScreen'
  2. Copy/create a Screen Scheme and associate 'Create Issue' operation with the 'TestScreen'. Let's say 'Test Screen Scheme'
  3. Copy/create an Issue Type Screen Scheme and associate those issue types(which you don't want to have the custom field) with the 'Test Screen Scheme', and other issue types with the original screen scheme(which you are using currently) Let's say 'Test Issue Type Screen Scheme'
  4. Go to the related projects and associate the project with the 'Test Screen Scheme'
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