There was Fifo size change in VLC decoder architecture but I am not sure if it will fix this issue.
http://mailman.videolan.org/pipermail/v ... 62723.html
but you might try latest 1.1.0 build and see if it works any better
http://nightlies.videolan.org/build/win32/?C=M;O=D (trunks are 1.1.0)