That's very odd. I routinely delete my config as part of testing and I've never seen this situation. It sounds like your installation is really messed up. All I can suggest at this point is to uninstall and reinstall. If the 10.0.3 subdirectory does not exist, SlickEdit will attempt to create a config based on a previous config directory. To be sure there is no problem with copying from a previous config, be sure to rename you SlickEdit Config directory, ".../My SlickEdit Config". If you have the v9 config directory, ".../My Visual SlickEdit Config", be sure to rename it too. Maybe we're picking up a bad config from v9.
As for the key bindings problem, I wasn't able to reproduce this. It's hard to imagine how loading an XML file could alter your key bindings, but I've seen stranger stuff in my long experience. Let's try to get you running first, then see if we can reproduce the problem.
If you are not able to get running based on reinstalling, call SlickEdit and ask for me, Scott Westfall, and we'll work on this interactively.
--Scott