I would love to know if http://blog.uber.com/applepay means that Uber won't be able to track who they are taking to various locations. That alone would be a big win for Apple Pay.
That's not how Apple Pay works; other than using a proxy CC# and hiding your info from the actual sales clerk, Apple Pay isn't more private than magstripe cards — merchants can still identify you, and it actually adds another party to the transaction: Apple.
How does the merchant identify you? My understanding is that, unlike a credit card, you don't share your name with them during an Apple Pay transaction. Also, Apple is not involved in the transaction beyond selling you the hardware which hosts the secure element.
They disclose up-front: "Apple may receive anonymous transaction information such as the approximate time and location of the transaction, which helps improve Apple Pay and other Apple products and services."