I have a user in JIRA which I want to de-activate. I have removed all the groups from his profile. When I try to delete the user, I got the following error:
How I can deactivate the user? Some links suggested that there will be check-box to deactivate the user but I didn't found anything like that.
To deactivate a user:
check this doc for more info
Note the difference between "de activate" and "delete". The error message you have is being thrown when you try to "delete" because you will be destroying information about the user and their activity.
You've already done the right thing by removing their groups - they will not be able to do anything in your system and won't count towards your licence.
That implies you are not deactivating them. Please tell us what you get when you follow the "deactivate user" instructions given in Rambanam's link to the documentation - what is different from the screenshots in there? (Other than the users name, obviously)
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