We need to migrate from Atlassian Cloud to our own hosted servers and I need a complete list of the plug in deltas between a standard downloaded JIRA/Confluence server instance and our JIRA/Confluence Cloud account.
There's no quick way to do this. The slow way is to go to "manage addons" in Cloud and look for all the addons that are not "system". That's what you've added, and that's the list you'll need to install on your Server version.
You don't need to worry about the hundreds of "system" ones. A few of them go away in Server because they're for looking after Cloud, and some others appear as part of the core package. But you don't need to do anything about them.
You can check all Installed add-ons in your JIRA Cloud and then go to https://marketplace.atlassian.com to check if they are available in the server version as well. If not, you can create a new question here asking about that specific plugin, and someone will let you know if you need to worry about it or not (can be something integrated to JIRA server or specific to make Cloud work).
Hope it helps!
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