Good catch. I just recreated the problem. I'll create a ticket immediately, and this will be corrected for 2.01.
As a work around, please try setting the "External KB" setting to "No", and just tap the keyboard button when you need to use the external/internal keyboard.
You will have to restart Remoter now that it's stuck in this bad state. Just closing it via the home button is not sufficient. First close it via the home button, then open the multi-task bar by double tapping home, then tap-and-hold on Remoter, then close it with the close (-) button.
Thanks for reporting the issue!,
Raf.
Edit: This might be a 4.3 only issue, btw. Is this your firmware version?
Edit 2: this is now tracked here:
http://trac.rafsoftware.com/index.fcgi/ticket/69