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I'm pretty sure the bell housing bolt pattern is different. The computer is going to want to see all the inputs and outputs that it expects, and will be tuned for the 4.6. If it is a digital dash, going to the 5.0 computer may not be an easy option.
Anything can be done, but I would think the 4.6 would be much simpler to do. In many ways the 4.6 is a better engine than a 5.0.
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