This isn't news, but it has always been the thing that made me doubtful about Tor.
If they weren't open about what they did with that funding, and the funding came directly from the NSA? Sure! That would've left everyone pretty doubtful. But since their funding comes from things like the NSF, OTF, ... and they're pretty open about the deliverables that each sponsor seeks[1] (for e.g. [2]), then there's really no reason to be doubtful.
[1] : https://trac.torproject.org/projects/tor/wiki/org/sponsors
[2] : https://trac.torproject.org/projects/tor/wiki/org/sponsors/S...