1 : I think that there are far too many options in BSM right now. A search function would be really nice or-
2: Have the most used options on the front page of BSM and have the most used plugin options on each plugins page.
3: Also, I think that instead of presenting the user with a full blown per-plugin interface, just do something like gnome-compiz-manager with x key toggles snoe, y key toggles rain. Use a cube / wall / nothing etc. But have an "Advanced per-plugin settings" radio-button on the front page.