Maybe it would be good to create a Java Application version of World of Goo.  Obviously this would improve support on countless unsupported Operating Systems and platforms, including ones that haven't even been invented yet.

If the company worried about reverse engineering (which I doubt anyone at 2D boy is, but some of the distributors may be) simple optimizing Java bytecode obscurer can make the code extremely difficult, but more importantly some of the better ones can make things run faster by stripping debug data, and doing byte-code optimizations that can't be done while maintaining debug capabilities.