@Thyme from what I see there has been heavy editing in the specific parts of the R integration concerning the very path variables (to integrate the conda paths to an R installation) so I think it entirely possible that something went wrong under specific circumstances.
I was not immediately able to spot the problem. At a certain point the path gets replaced by something it should not … I see a removed blank and different PATH syntaxes …
Maybe @bwilhelm can weight in.