[whpalmer4]

Are you intentionally looking at a focused window, which only shows a subset of your database? I'm guessing the answer might be to that question might be "no". To remove the focus, do View->Show All Projects. You can get a focused window by a number of different routes, including double-clicking on an action, and it is a very useful feature, but perplexing if you don't realize it! See "focus" in the OmniFocus help for more details.