So, with the users that cannot login, can you see their accounts in Splunk? If not, then the problem is with Splunk syncing with AD to create those accounts. I have seen before where if there aren't certain fields filled out in AD for users then their accounts won't sync, thus not be created in Splunk (maybe the Full Name field?). I would just compare one user that is working and one that isn't in AD and see if there are any empty field values.
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