As a skeptic, you cannot proclaim any particular scientific endeavor as being a pseudoscience by introducing a flawed interpretation. A priori assumptions are legion, good explanations are rare.
Qualia is your inner mental experiences. Science has no way to prove or explain it. You don't have to prove to someone that pain is real. Science has limitations.
If you want to describe the universe in natural terms, you're going to have to leave out a whole lot of stuff.
Academia is the new church. Popular scientist are the new high priest. Science is the methedone.
Modern philosophy is the art of myth making. Anything that is proved beyond a reasonable doubt is science.
The assumption that you have acquired enough knowledge is an adolescent trait, the mature soul contemplates the deeper meaning of things.