I'm not surprised at just how limited their information seems to be.
They don't have many reliable sources, and many of those are unlikely to be particularly knowledgeable themselves. Given their conduct toward the supernatural, at least from what we've been able to learn up to this point, their adversarial approach and insistence on coming at everything from a position of authority really hasn't done the Daedalus folks any favors.
As for comparing them to the Paranet, that's a lot like comparing apples and oranges. The canon Paranet is the better part of a decade in the future, will be formed under existential pressure, and draws on the knowledge and talents of far more people than Daedalus could reasonably hope for.
? Then coming expecting to come from a position of authority is not unexpected, they are literally a government agency which is expecting their authority within the nation they are representing to be respected both for sovereignty and territory reasons. As for the supernatural, bare in mind that most encounters they will have with the supernatural would be the most visible which are things such trolls attempting to eat people, phobophages along with other stuff which would reinforce their impression of supernatural as being hostile, leading to the adversarial approach and the conduct they have towards it. Non hostile supernatural in Dresden tend to blend in far more and not cause incidents which would attract attentions of Daedalus, thereby leading to the sample size that results in this outcome.