Ok, works great, I just have to start the second instance using the /newinst command line.
Actually there is even a command line option that let's you select a different config file. But I think I will stick with 2 folders, so I can even give it a different look.
To those that, like me, didn't know about the command line options, just run a cmd window in reaper dir and type this: reaper /?
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