This message occurs because the update requires 2 parts. First, the binary update part which it does on its own. Then, the database needs to be updated. The database is a manual command you'll have to run.
To perform the update, you'll need to open an elevated SharePoint PowerShell console. Once you've opened PowerShell, you can run the following command to see if the update is needed: (get-spserver $env:computername).NeedsUpgrade
To Perform the Update, you'll need to change your directory
CD "C:\Program Files\Common Files\Microsoft Shared\Web Server Extensions\14\BIN"
And then run the PSConfig Utility.
PSConfig.exe -cmd upgrade -inplace b2b -force -cmd applicationcontent -install -cmd installfeatures
After running the PSConfig utility, you may need to reboot your server to get rid of the warning message. If it does not disappear upon reboot, you can open the Group Policy Management Console - gpmc.msc - and look for the policy "SharePoint Psconfig Notification Policy".
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