Maybe I was unclear, but I was wishing for a situation where the Name Constraint extension was wildly enough used that LE would issue scoped sub-CA certs for *.whatever.yourdomain.com, which I hold the private keys to.

But yes, I agree with your larger point. However, "nice" naming scheme might conflict with "secure" naming scheme. E.g, perhaps admin-{not-yet-released-product-line}.acme.com is the most resonable domain name, but it would be unsuitable if it was publicly announced via CT logs.

Any way, having the domains in the CT logs, and naming them considering that is probably a tradeoff worth making.