I’m having the same problem with FFT of Elsevier journals accessed via ScienceDirect. I think it is related to an update of the ScienceDirect download PDF option, which (when viewing the full text in the web interface) now offers to download either the PDF of the article or the article plus other articles from the same issue. I wonder if this additional option is fouling up the download by EndNote?
I would also be greateful for a work around to this problem, as many of the PDFs I download to my EndNote library tend to come from Elsevier journals like Peptides.
Thanks in advance!
Stephen