I'm having this weird problem. All my settings used to work OK, until I updated my version of PHP. I use macports and have the php5 and php5-xdebug ports installed.
xdebug is working, but it is stopping on the first line of my script even though I have the option disabled in PhpStorm. There is no breakpoint there, and breakpoints in other parts of the code are working OK.
If it helps, here is the xdebug portion of phpinfo (in two parts); https://dzwonsemrish7.cloudfront.net/items/3K3R2N1f1A190K372n0S/Screen%20shot%202011-08-18%20at%203.06.29%20PM.png?v=54c8964d, https://dzwonsemrish7.cloudfront.net/items/0i133s0U430k3u3w3B1E/Screen%20shot%202011-08-17%20at%205.14.25%20PM.png?v=1278da84 and the proof it is disabled in phpStorm: https://dzwonsemrish7.cloudfront.net/items/3W2S060I1b0W1q0z0c45/Screen%20shot%202011-08-18%20at%203.07.00%20PM.png?v=85471026
Is there an xdebug setting I need to change? When I did the upgrade, I lost my php.ini that had some other xdebug configuration.
The above didn't work for me because as far as I can tell if you're using Xdebug the only debug bookmarklets you get is start/stop and debug this page. I don't see any bookmarklet specific to stopping on first line, and neither the start/stop bookmarklets nor stopping PHPStorm from listening within PHPStorm fixed the problem for me.
To get it to stop I did this (on OS X):