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Now for the good news: SCOTUS is taking a patent case and is expected to invalidate method patents within the next year or two (which is pretty much all of the ones listed).

EDIT: Now for the best news: Most of those patents are not American and could not be patented in America (b/c the US does not allow patents on algorithms).

Classic work - the paper is well worth reading. A couple of highlights:

Using a fitness metric of 'distance travelled by CG', one solution was simply to build a very tall tower, and wait for it to fall over.

The evolved solutions would exploit bugs in the physical modelling - exploding the maths by moving two blocks very close together.