configuration.copyRecursive() vs configuration.copy() doesn’t seem to matter.
From the apidocs I see for copyRecursive:
Creates a copy of this configuration that contains the dependencies directly in this configuration and those derived from superconfigurations.
and for copy():
Creates a copy of this configuration that only contains the dependencies directly in this configuration (without contributions from superconfigurations).
I don’t think that is related to transitive dependencies, only derived from other configurations?