Freenet protects communication — content in flow. Somewhat larger files that are not accessed automatically disappear from Freenet after a short while.
Tor protects your connection to another computer.
The stated usecases are excellent examples for usage of Freenet: information for transgender people or about abortions. Even accessing such information can get you in danger nowadays.
And a site accessed via Tor can more easily be compromised (to get your identity by tracking information from your OS or similar) or taken down (so the information is gone).
What is this? Are governments mandating that corporations install government monitoring modules in their networks?
Not only CALEA, but telecoms, ISPs, and other providers work hand in hand with governments who request data, whether those requests are via NSLs, warrants, subpoenas, court orders or just government employees asking nicely for the data.
Many companies, including for example Apple who is open about this, are happy to hand over private information via simple requests from law enforcement that they are not legally bound to respond to like they are with warrants or subpoenas.
I'd assume by scratching law enforcement's back, the government scratches compliant companies' backs, as well, considering the contracts they get and favorable treatment they get from regulators.
Women looking for abortions in the US just learned the hard way why this is an essential practice.
Recommended watching: The NSA surveillance doesn’t scale — Constanze Kurz at Euro Python 2014: https://archive.org/details/EuroPython_2014_kSFzmDYc
Given that Tor is a US government creation, I'd assume they'd find value in controlling as many different nodes as they can in order to deanonymize traffic. Tor only has/had value to them as a way for government agents to communicate clandestinely in other jurisdictions.