First, apologies for not having an MWE, I know it makes things harder. I am unable to replicate the problem on a small example.
I suspect there is some kind of bug with multirow and pdflatex.
I keep getting the following error:
! pdfTeX error (\pdfsetmatrix): Unrecognized format.. <to be read again> \endgroup \set@typeset@protect l.511 ! ==> Fatal error occurred, no output PDF file produced!
If I remove a table that uses multirow, this error disappears. Note that line 511 is way after the multiraw statements in the tabular environment, it is a random place in the text.
I can't figure out why this is happening, and I googled the error in combination of bug, multirow, etc. and nothing comes up. Any ideas how to either isolate the problem to understand it better, or otherwise understand what is its source?
EDIT: My use of multirow is completely correct. If I use "latex" (instead of "pdflatex") with the .tex file, it compiles fine.
(For the multirow statements, I use the multirow package.)