Cloning is not the same as moving.
The Clone process only captures field data, it drops history, comments and things like watchers, as the point of a clone is to duplicate core information and make a new issue. You'll have to add watchers on to the issues as they're new.
I have multiple projects that use variations of the same base workflow. The variations depend on the requirements of the project or issue type. The variations mostly come in the form of new statuses ...
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