In these cases, Outlook should pick up the new settings and be ok. However, users may get a popup requiring them to restart Outlook ( An Administrator has made a change...) or in some cases, a new profile may be required unfortunately.
I assume you are also changing the internal SCP:
Set-ClientAccessService -Identity "MBX-01" -AutoDiscoverServiceInternalUri "https://mbx01.contoso.com/autodiscover/autodiscover.xml" -AutoDiscoverSiteScope "Mail"