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I run all my itemjoin items via permission so it all in one place and I know what links to what. But there's not permission change trigger so items aren't given correctly.

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Oh hey.... sorry this was added in the official latest release, it's called the permission-switch trigger.
A few others requested this on Discord so I overlooked this open GitHub issue.

Link; https://www.spigotmc.org/resources/itemjoin.12661/download?version=543458
Remember to remove your old ItemJoin.jar file

Thanks for requesting this feature!