I haven't had time to deeply look into this, but upgrading to the 4.3.0 CLI binary (previously was the 4.2.2 CGI binary) seems to break the graphs. Going to my graph output directory, it says it can't open the stream to include the file on line 295 of include/rrd_functions.php. Line 295 is include ('include/config.php'); so I don't see what the difference is here, unless it interprets relative paths differently.
I used the same php.ini file for both versions, but 4.3 stops generating graphs (and I have a nice 3-day gap in all my graphs since I didn't notice it stopped working). I went back to 4.2.2 for the moment, but it would be nice to run the current version. When I have time, I will look into the differences a bit closer, unless of course it gets fixed before then
