Hi, I have the same problem, but I use Logic Express 8 and I planned to upgrade to Logic Express 9 hoping to solve this problem. Since you're using Logic 9, I now doubt that this will be useful...
By the way, I also have the awful problem of Logic crashes when adding AF 2.5 as an AU plug-in. It seems that this happen when adding AF to an existing project or starting from a template. It seems to work fine when starting from scratch on a new project. I'm pretty sure to make Logic crash if I start from a project Template, adding AF to that.