https://github.com/chromium/ct-policy/blob/master/ct_policy....
You may find this useful: http://www.certificate-transparency.org/how-ct-works
Whether you use any specific CA, like LE, or not, has no security impact.
It's about what your users trust and you don't control that.
Like any other CA, they do have the technical ability to sign arbitrary other certs, so could issue a cert for MITM. As some other comments show, certificate transparency is starting to reduce this risk.