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? Doesn't this show that we aren't stuck with the same hammer? Opal is a different hammer.

Not really. You're still using Javascript in the end.

How is that a bad thing? Source code VMs are easier to secure and as the tooling improves, you don't need to look a the generated JS anymore to debug, it becomes "byte code".

Wasn't that the original goal of Java, like, 20 years ago?

It was, but the big issue there was that sun decided to keep all the keys of the castle to themselves. Hence the desire for an open bytecode format.

Native Client? Or PNaCl if you insist on extreme portability.