I read somewhere a while ago that LE are working on what’s called “intermediate CA” [0] which would solve the problem. Apparently from a regulatory standpoint there are some questions around abuse that need to be answered before they can go ahead. The basic idea is that you can issue your own certificates based on the LE CA that is already recognised by the browsers.
EDIT [0] https://community.letsencrypt.org/t/does-lets-encrypt-offer-...
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