I would look at message attributes. i.e. create a message attribute 
somewhere on the rig (top level?) and plug the "message" attr of the shader 
or shading group into that. Then it's persistent across maya sessions,etc. 
Should be pretty easy to add to your script, too.

#create and connect message attr
cmds.addAttr(YOUR_RIG_OBJ, at="message", ln="origShader")
cmds.connectAttr("{0}.message".format(YOUR_SHDR), 
"{0}.origShader".format(YOUR_RIG_OBJ))

# getting object back from the message attr is bit weird, maybe there's an 
easier way? I'm getting the attr then getting the object from that
orig = cmds.connectionInfo("{0}.origShader".format(YOUR_RIG_OBJ), 
sfd=True).partition(".")[0]

Z

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