I have the same problem.
I just installed PT 7.4 (TDM) on my new Mac Pro (OS 10.5). AF SE came bundled in the Ignition Pack 2 Pro that comes with PT HD Accel 2. All the other plug-ins in that bundle installed like normal and can be used in my RTAS plugins folders, except Analog SE. It's just not there. I look in my RTAS plugins and I can't see any AF instruments anywhere. I followed the link the administrator suggested above, but it was no help. I even checked in TDM and AS plugins. The plugin itself is sitting in my proTools plugins folder. I, too, can run it as a standalone.
btw, I had this exact same problem when I tried loading this on my other (portable) ProTools setup a year and a half ago (which consists of a mBoxPro and a MacBookPro running PT LE 7.3.1), as it came with an Ignition Pack for PT LE. I just never bothered trying to fix it, cuz there were so many other plug ins that worked.