Here is how I distinguish between these two mechanisms, there is no guarantee of correctness;)
Meteor template methods are used to bind data, so they have a local scope. Each template needs a subset of the application data, possibly presented in various forms. And this subset is defined using template methods.
Handlebars is the template structure itself, so helpers control how your application will present the data it receives from the Meteor data layer. You may need special types of enumeration, you need a way to "match" data values โโwith paths, etc. But you only work with data provided by the "data layer" and do not extend it.
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