This is for limited use, and isn't a product for the masses.
There has already been some pretty good stuff posted, but just keep in mind that once you've released your code, if someone is really interested in modifying your code, they probably will. I doubt there will ever be a 100% guaranteed solution.
The military has been investigating elements of this for a few years with respect to unmanned combat vehicles (they know they are going to be captured by their enemy, so for a variety of reasons they want to protect the code), so you may want to look around at DARPA and DARPA contractors to see what unclassified papers have been published.
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