As some one pointed out months ago, this program is not completely compatible with x64 platforms. Your system requirements page (above) is not entirely correct and could be considered misleading.
I uninstalled Startup Organizer shortly after installing it because nothing was showing up in the list but they were all starting when I booted.
In trying to come up with some detail for you to work with I reinstalled Startup Organizer. Now it's working. So I'll leaving it running now and see if I can come up with any problems.
The only thing I vaguely recall right now is that Startup Organizer showed maybe 1 item under 'All' while many more items were starting. I figured the registry was just too different and uninstalled Startup Organizer. I installed another program and it showed those things that Startup Organizer didn't.
I know Windows uses different registry keys for 32-bit programs on a 64-bit machine but it seems some reflection takes place to isolate that difference from legacy applications. So, Startup Organizer should work. Maybe the other person can shed some light on the problems they were seeing.
In the mean time, I'll play closer attention as I continue to install/test other programs.
That's the other post, and now I see what they are talking about. I don't quite understand it yet though. Running the 64-bit version of Regedit I can see three programs in HKLM\...Run that SO doesn't see. Running the 32-bit version of Regedit, you see what SO sees. Don't know if that implies the need for a 64-bit native version of SO or not.
Perhaps SO needs to run with a higher privilege?
Please let me know how it works. Thank you!