I pulled down the source; looks like the patch is written for dnsmasq 2.60, and the changes in b546 just delete the commands that apply the patch without replacing them with anything.
It looks like the existing patch applies relatively cleanly to dnsmasq 2.66 (though I did not test it), so hopefully it'll work when someone gets to it.
I found some discussion from when this problem happened previously:
http://forum.m0n0.ch/index.php?topic=5607.0