This is because the way that Interspire Email Marketer handles templates was changed in this release. The templates have been ordered into catagories and have been renamed to help you find your desired template faster.
To fix this simply remove all templates that have brackets in their name such as 'Business (2 column)'. The built in templates are located in the 'admin/resources/email_templates' folder in your installation.
This will remove all your duplicate templates.

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