I know that Marketo has the ability to send operational emails which skip/bypass opt-out rules, should we need to send an email that everyone must receive.
Please move the question to Products (Move link at the right). This isn't a support space, it's for webmaster feedback about the Community site itself.
Operational emails skip system-level suppression rules.
They don't skip your manually created filters.
So if, for example, a Smart List requires that someone have a custom Boolean field Receive Product Announcements set to true in order to qualify for a send, if someone's value is false they won't qualify merely because the email is operational.