Does anyone know of such a system in the .NET universe? (Why is it that .NET always seems to be way behind java with the type of tool support?)
First, your question is a little misleading. This isn't a "Java tool", per se. It's a tool that happens to understand Java, but works as an SCM for any blob of text; you just won't get the refactoring support if it's not Java code. So one could could easily ask instead (and perhaps more accurately), "why doesn't MolhadoRef support C#?"
Second, the reason you don't see many tools like this is because this is an academic research project, not a commercial product. It's also a prototype, not a finished work. Notice that the last update was around 2007.
Finally, the design seems awful. They had to design an entirely separate SCM (Molhado) solely for the sake of implementing these ideas, when it sounds like many of them could have been done in the context of an existing SCM. I won't second-guess the researchers since that smacks too much of armchair quarterbacking, but modern SCM tools like git
or svn
could very easily have third-party plugins that would do exactly the same thing MolhadoRef does, without requiring you to switch to an entirely new SCM ecosystem and wreck your toolchain.