LS1 and LS6 are part of the Gen III Engine design.
The LS6's casting is different then the LS1's. They are said to be stronger and allow better baffling and breathing in the crank case due to windows in the crank case. SOME LS1 engines got LS6 style blocks. 10-15% of 01 and 20-25% 02 Fbodies got LS6 blocks, and by 03 to the LS2, all LS1's got the LS6 block. All LS1 engines from 01 to 04 got the LS6's intake design, which improved flow and increased hp by a little.
Physicly, you wouldnt notice much between the two.
LS2 is a Gen IV engine. They got a little tweeking, but used the LS6's casting style to make the LS2's block. The LS2 is of larger displacement then the LS1 or LS6.
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2/20/2013: They Day the ****s Stopped
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