In June of 1905, when he submitted "The electrodynamics of moving bodies", he had a PhD in physics and had already published several papers in the same journal. He didn't hold a university post, but he very much a member in good standing of the physics community. I don't see why somebody in an analogous post today would have trouble publishing papers.
The lack of citations is interesting, but I think you're reading too much into it. It shows that scientific publication norms have changed since 1905, but it's not as though Einstein would have been unable to add the appropriate references if the journal had expected it. You might equally well say "the paper couldn't be published today because it's in German, not English".
[See http://en.wikipedia.org/wiki/List_of_scientific_publications_by_Albert_Einstein and http://en.wikipedia.org/wiki/Einstein#Academic_career ]
SIAI benefactor and VC Peter Thiel has an excellent article at National Review about the stagnating progress of science and technology, which he attributes to poorly-grounded political opposition, widespread scientific illiteracy, and overspecialized, insular scientific fields. He warns that this stagnation will undermine the growth that past policies have relied on.
Noteworthy excerpts (bold added by me):
In relation to concerns expressed here about evaluating scientific field soundness:
Grave indictors:
HT: MarginalRevolution