Doesn't make sense to me to use a transpiler that chooses not to support parts of the spec that I would like to use. The whole value proposition is that I should no longer have to worry about whether language features are supported, but with this now I would just be thinking about whether my transpiler supports a given feature instead of the browser.
Are you referring to the new API such as #array.findIndex ? I think the bublé approach makes sense. Polyfilling, when possible, is better than transpiling because it adapts to the user browser capacities. When using a polyfill service such as polyfill.io, only the necessary polyfills are loaded ; which means smaller bundle size and increased perf with the built-in features. This is actually very smart in my opinion.