This is mentioned in http://trac.sagemath.org/ticket/13430#comment:1, but 
it is later stated that this is fixed by 
http://trac.sagemath.org/ticket/13528. However, it appears that this latter 
ticket was never applied, as the problem still exists in version 5.12. 
Since the ticket listing the problem was closed nine months ago, I'm not 
sure what the proper way to bring up this issue is (whether to re-open that 
ticket, start a new one, comment on the ticket that supposedly fixes the 
issue, etc), so I'm asking about it here.

For reference, here is the issue:

sage: list_plot_semilogy([10^-i for i in range(3)])

works, but

sage: list_plot_semilogy([10^-i for i in range(4)])

does not (it produces a blank plot).

I encountered this issue using different data that included very small y 
values (order 10^-12). Since you can't include points on the x-axis for 
semilogy plots, it is possible that points that are too small are being 
interpreted as 0. Consider the following:

sage: list_plot_semilogy([10^-i for i in range(3)]+[0])

produces a blank plot, but

sage: list_plot_semilogy([10^-i for i in range(3)]+[0], plotjoined=True)

produces a line connecting the first three points (and apparently ignoring 
the fourth point). However,

sage: list_plot_semilogy([10^-i for i in range(6)], plotjoined=True)

produces a line connecting all six points.

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