We have JIRA and Confluence in Linux boxes; currently they sync Active Directory users accounts from Windows 2008 R2 Active Directory. We are planning to migrate to Windows 2012 Active Directory. We want this migration to be smooth. Please help. Thanks
Yes, you should be fine with that. As long as the new 2013 AD servers can be used by JIRA and Confluence - and especially if you are migrating the whole thing - credentials, user lists, groups all the same as 2008, you shouldn't notice any difference.
(p.s. I've changed your labels to remove "Cloud", as Cloud does not support external directories such as AD)
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