So I emailed HTC and asked them about the shipping with s-off and what's going to happen with the the flyer that have been shipped with the s-on and this is there reply
Good question, We definately understand the concern regarding the phones with bootloaders that are currently locked.
At this point in time, we don't have any information on how existing locked bootloaders will be unlocked. Though, once we decide on a game plan regarding the currently and planned locked phones, we'll definately also announce this through our website, as well as Facebook & Twitter, as well. Stay tuned; we'll definately let you know, as soon as the information becomes available.