Wanted to understand if there is any way we can get to know what application and users are using the rest API and accessing the Atlassian Instance.
Unless the remote system embeds something in the REST call it is making that says what it is, Jira can have no way of knowing what is making the call.
If you have logging at the right level, you can see what the incoming calls are in the logs. I've usually done this with a proxy in front of the service, which can also log the source of the call (so IP address etc), which can be of some use.
Thanks for your help!
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