Yep, the clocks are tied in to the ECU, which is tied in to the PATS immobilizer.
If you grab replacement clocks, ECU, and key chips from the same car, then it's a straight swap. Locks aren't part of the system, but the security chip in the key is.
If you just replace the clocks Ford should be able to reprogram them to match your ECU, though there might be a higher charge as I don't think it's quite as simple as programming a 'blank' cluster.
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