I have LockBot Pro, but i'm running stock Froyo and I had a similar problem with both lockscreens popping up. I really haven't found a perfect solution, but I found a way to stop both from coming up for a while. I've listed my steps below (you may have figured this out by now).
It's more of a workaround than anything else: Open the LockBot app and hit the menu button and select Config. There is an enable check box at the top, uncheck the box to disable LockBot and back out of the app all the way to the homescreen. After doing this, hit the power button to lock the screen and wait a few seconds (5-10). Go back to the Config menu for LockBot and select the check mark to re-enable. When you back out of the app and lock the screen you should have fixed the problem. When the screen locks again and you go to unlock it you'll notice that only the LockBot screen displays.
This may help with your problem, but I'm not sure because you are running skyraider whereas I am running stock and it may be two different problems. I really think the dev just needs to update the app to support Froyo better.