What OS are you on? If it's Win7 then the settings files of the first install are probably in C:\Users\<user>\AppData\Roaming\mIRC
You can always go to this directory (which contains mirc.ini) by typing //run $mircdir
Make sure that the second install (the bot one) has both your second mirc.exe and its own mirc.ini in the same folder or it'll use the mirc.ini file of the first install.
