trying to boot FireTOS. EmuTOS boots up with switch #5. Don't know how to do the terminal
You'll need a serial cable connected to the serial port (the one closer to the USB connectors). Then connect the other end to a PC (or whatever you have) and startup a serial terminal program (like putty or teraterm or minicom if you happen to have a Linux machine).
I would however assume while EmuTOS is booting fine (does it detect your drive?) it's just a FireTOS config variable that's screwed up (FireTOS can be set up to boot from the 2nd IDE port, if you do that and there is nothing connected, it will not boot from disk at all).
Did you touch DIP switch #2? This is the one that controls if CompactFlash or IDE is tried as boot drive (should be mentioned in the leaflet you got with your FireBee).
Try flipping it and see if you can boot.