Changing a standard CTCP reply
ctcp 1:ping:?:/notice $nick Ouch! | /halt
This will react to the standard ping CTCP and will reply with "Ouch!". The /halt at the end of the line prevents the standard ping reply from being sent. If you don't use the /halt, the standard reply to PING will be sent.
ctcp 1:time:?:/notice $nick The time here is around $time | /halt
This will react to the standard time CTCP and will reply with the above message. Again, the /halt prevents the standard time reply from being sent.
Note: You can't prevent the standard version reply from being sent.
Taking into account the context under which that note exists, I have always assumed that it reffers to the method described there. I've always read it like:
"Note: You can't prevent the standard version reply from being sent
[with this method]."