Hi Sean,
It sounds like there are characters in the password which your bank site doesn't like. To fix this, change the "characters" field in Advanced Options->Defaults->Page 2 Tab->Characters.
In the drop-down, select one of the alphanumeric-only character sets (or type your own)... make sure there isn't anything but letters and numbers.
Now the generated password should be accepted by any website...
Hope that helps,
Eric