I think it is not isolation, but the quality of measurement accuracy, that makes the measuring CT and the Protection CT having different cores.
In 5P20 CT the limits of the current error at rated primary current will be +/- 1%, the phase angle error at rated primary current will be +/- 60 minutes and the composite error will be +/- 5%. This shows there is a very high tolerable value for protection CT. Of course Class 5 accuracy is also available in measuring CT. But generally for measuring CT class 1 or better is used. So the cores will be different for measuring CT and the protection CT. For protection you may even need two separate cores because of different use of the protective relays.