I can write a custom project tab panel rather comfortably, but I'm having a hard time figuring out how to enable the panel only for certain projects. Can this be done in either the .vm template or the actual .java class?
How are you doing it? If you are doing it the old way, by extending AbstractProjectTabPanel class, you can override the showPanel method to show/hide the panel.
If you are doing it the new way, by defining web-items, you can use the condition classes to define what is shown. See https://developer.atlassian.com/jiradev/jira-platform/guides/projects/design-guide-jira-project-centric-view/development-guide-jira-project-centric-view for more!
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