Both statements are simultaneously true.

The goal is to protect the physical and institutional USA (and equivalent for other countries' intel agencies); this requires making sure there's no successful conspiracies, from within or without, to destroy it; this requires all the things we here all agree are bad for digital security, including the security necessary to running e.g. electronic banking ledgers or votes.

I don't have any actual solutions here, that's just a description of the problem space as I understand it to be.

There's a bunch of US agencies sponsoring Tor, presumably to undermine hostile governments, even though there's also US agencies trying to subvert it.