If you disable anything, delete anything, or have anything frozen, then the update will fail. The best thing would have been to OTA, and then root. You'd now be pretty much starting over, or putting everything back that was frozen or deleted, and likely you'll miss something. You'd likely need to re-flash the AP and CSC files again, which will factory reset the phone.
Is there any particular reason why you want the update, because the only thing that you will gain is Lookout and YP, which can be downloaded from the playstore, unless there is some performance difference that I don't know about.