What kind of dilemma choice is that? It should rather be:

"Which one is safer, using PBKDF2 from a known implementation or bcrypt from a known implementation?"

But even that question is erroneous. After all, why shouldn't we just use PBKDF2 from RSA's known BSAFE implementation? What could possibly go wrong with that?

Or if you don't like RSA because of da Feds, why not use the known-good OpenSSL for securing data in motion instead of something new and untested like stunnel or spiped?

Known implementations are a very good consideration factor. You should use TLS (though maybe not OpenSSL's) in general instead of designing your own secure transport. But being from a known implementation should not be the only factor you consider otherwise you're just cargo culting. You have to understand pros/cons of each solution, even if that means you have to learn a little bit about the problem space.