I use SSH for things which are private or which I may want to push to, but I use HTTPS for everything I just need to download. SSH typically requires that you create an account with whatever the git host is and upload your public key.

SSH in typical use is not vulnerable to a compromised root certificate, instead it's "just" vulnerable to you having no idea whether you can trust that host key or not, so you just blindly say yes and hope for the best. At least if the key changes, you'll know something was wrong; maybe it was this connection that got compromised, maybe it was the first connection that got compromised, maybe the legitimate host just rotated their keys, who knows. SSH security against MITM is mostly based on lack of motivated attackers and wishful thinking.

yeah, it's a good habit to have. Unfortunately, GH defaults to the TLS transport.