Passkeys are enabled by default.
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From an administrative account on GitHub Enterprise Server, in the upper-right corner of any page, click . 
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If you're not already on the "Site admin" page, in the upper-left corner, click Site admin. 
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In the " Site admin" sidebar, click Management Console. 
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In the "Settings" sidebar, click Authentication. 
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In the "Passkeys" section, deselect Enable passkeys. 
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Under the "Settings" sidebar, click Save settings. Note Saving settings in the Management Console restarts system services, which could result in user-visible downtime. 
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Wait for the configuration run to complete.