Do you have any aftermarket head units, I-Pod adapters, alarm, etc ?
The newer trucks are told to be quiet by EFI-Live, but sometimes an aftermarket item will cause system noise and mess up the boot loader instructions.
If you pull the radio fuse and info fuse under the dash as well as the fuse for any aftermarket item it should be OK.
Also, make sure the key is on the second position as the first is the accessory position.
If you give me the SN# of the ECM and the VIN# I can check my records and see if I tuned it, searching through several hundred files is easy when they are sorted properly.