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Hi Kiwiguy,
I believe that was a bug introduced in the 2.0.9 upgrade. 2.0.9.2 squashed the bug and the developers are still working on a fix to safely remove the duplicates.
A workaround that works for me is to clone my templates, delete all the duplicated templates in the clone then regenerate them. Then I have the proper number of templates, but are listed in red.