Why?
Why?
This means that it's under much higher scrutiny by the public. Due to that big profile I also expect security issues to be fixed quickly as Apple has much more reputation (and money) to lose than Yubico.
Finding exploits in the iPhone's secure element gains you much more fame than finding exploits in the Yubikey.
And finally, Apple has come out very publicly against aiding law enforcement and has a much bigger war chest to fight requests by law enforcement.
Yubico has neither.
Stealing my iPhone gives you almost zero chance of accessing the second factor, I would notice a lot quicker, and I could revoke access (remote wipe) with a single click versus having to re-enroll a new 2FA at every single site individually.
Apple just has a lot more riding on their chip, and since they first introduced a secure element back in 2014 have spent perhaps 2 orders of magnitude more dollars on security R&D than Yubico ($4mm angel round in 2007, $30mm raised in 2017)
Apple’s secure element is in, what, more than a billion devices, and powers how many billions in Apple Pay? Yubikey by comparison ships devices that mostly nerds pile in their sock drawer with those old USB sticks they don’t use anymore.
Note Google uses Yubikey to authenticate it’s employees into their laptops — hardly just nerds piling in their sock drawer.