@Abhinav Kumar can you please elaborate more on your need?
I have two JIRA instances (New, Old ) and both have different configuration, custom fields, issues.
There is a high level description of how you can merge JIRA instances here https://confluence.atlassian.com/jirakb/how-to-merge-jira-applications-instances-244352137.html
Here's a short summary of the steps:
Note that you might face more problems like for example JIRA project import does not properly handle issue history and you might need to manually fix these in the database.
Thanks a lot
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