I just wanted to know if they both use the same key file to register it.
Nope that was changed as soon as slysoft bought clonecd, they did honor elby's commitments tho and issued keys to people who still had time left on the update period, with this last update all ties to the elby key ended, now they only offer a 15 dollar discount.
You stick with the older version's, it's blacklisted has been for awhile now, this new update is the first update to fix the blacklisting problem in over a year, with what the new one can do now it really does make the old one useless.
Olli's explanation it can be found at cdfreaks