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Difference in 06 5.3 VIN Z and 04 5.3 VIN Z

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I have a 06 5.3 vin Z with 240k+ miles and have found a few 04 VIN Z engines with low miles. What are the differences in those year of engines? I also have found a few 04 engines that are not the flex fuel 5.3. Will these work in my truck as well? 

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Flex fuel required changes to the fuel system to support alcohol. So fuel tank, lines etc where I upgrade to remove rubber etc.

Nearly all engines will support e10,e15. However, if you are trying to run E85, you need an engine raged for such. The engine will support higher compression to needed for the lower btu fuel.

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