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A couple of places tell how to compile c# scripts manually: http://www.unifycommunity.com/wiki/index.php?title=Manual_Compilation_of_C_Sharp_Unity_Scripts http://eej.dk/angryant/general/tipsandtricks/assembling-and-assimilating/ But is there any information out there on Manually Compiling UnityScript/JavaScript? And further, to link the C# and the JS into a single build / DLL / library / ...
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I'm not 100% sure on this, so I won't post it as an answer, but it sounds like this is a Mono question and not a Unity question. The first answer you posted looks like it uses a Mono tool and loads the Unity engine as a library for compiling the code. Unityscript isn't generally supported by Mono, so unless the folks at Unity specifically built a tool for manual compilation, your only real chance would be to run your code through a Javascript compiler for Mono that could load the Unity libraries.
What exactly are you trying to do? Perhaps there's a better way...