Fonts not showing up in CS4

Leopard 10.5.8
CS4 6.06
fontAgent 4.140
All was well until a well meaning person swiped my hard drive by mistake. I have reloaded everything. My system had been fine for a year, no font problems.
FontAgents plugsins are loaded and appear listed in preferences. But when I activate a font, it does not show up in my Indesign menu list. My FontAgent fonts are in a folder in Users/home as they had been before. the auto-activation works, but I can't open up and design with any new fonts. I have not dumped any font caches as it seems more complicated than before.
I'm going nuts tryiing to figure this out. Any help would be appreciated!

Existing activation seems fine. So I did make a start up set, and those fonts do activate nicely. This was a workaround. And I also have dragged an alias of the activated font into the Indesign fonts folder, and wham, they show up immediately in the menu list.
I am used to activating a font in Fontagent, and wham, it shows up immediately in Indesign menu list, working as it should and helping me work quickly. Maybe in my reload of everything, something has gone awry. If I can't figure it out I might reload it all again. thank you for your input..

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