If it's the guy that closed his issue this morning it sounded like they just used the .exe and didn't expand and overwrite the new HLSL files from the dist package.
FYI I simply take the .exe from Robbbert's site and plop it into my distribution directory structure. Then I copy in all the support folders and the whatsnew from the official commandline dist and then do sanity checks on it to make various games kick off properly when launched.
I'll double check that something didn't go wrong w/ the package when I get home when I have the ROMs to do it. Actually I just tried it here extracting the package from my site w/ Pong and it was fine (I have DX9 installed here).