I'd like to summarize some of what I've experienced in case others come along having a similar problem. Since the underlying problem is likely not with BasicTeX, and others' answers aren't related to it either, I'm going to be more general....
I also have this problem, but with TeXLive and/or MacTex (I think...). I have TeXLive 2012 and couldn't update it via the Tex Live Utility app because the TLU said that I needed to do a full upgrade to TexLive-2103, as shown:
What I Tried:
I downloaded TexLive 2013 and installed it. Although it successfully installed (a la
latex --version ==> 2013), the TeX Distribution preference pane indicated I only had TeXLive-2012:
Evidently, I have the following distributions (I thought I had just TeXLive-2012):
Fink-teTeX.texdist/ MacPorts-teTeX.texdist/ TeXLive-2012.texdist/
Following the "related question" linked below, I checked to see where all related directories were:
ls -l /Library/TeX
drwxr-xr-x 9 root wheel 306 Jul 10 2012 Distributions/
lrwxr-xr-x 1 root wheel 38 Jul 10 2012 Documentation -> Distributions/.DefaultTeX/Contents/Doc
lrwxr-xr-x 1 root wheel 45 Jul 10 2012 Local -> Distributions/.DefaultTeX/Contents/TexmfLocal
lrwxr-xr-x 1 root wheel 39 Jul 10 2012 Root -> Distributions/.DefaultTeX/Contents/Root
I could definitely fix this by changing some soft links -- specifically, if I changed
Distributions/.DefaultTex to point to a different distribution -- but I think part of the issue is that I was installing TeXLive-2013 when I should have been installing the larger package, MacTeX 2013, which contains TeXLive-2013, plus an updated TeX Live Utilty, among other things. Other posters seem to be confused by this as well.
How can I tell TeX Live Utility where my TeX distribution is?
I admit that this is not a solution, but I hope it adds to the discussion and that somebody finds it helpful!