I have found the Procedures Guide from years ago. Here is what is says about the notes box:
'Next to the transcription box is one that allows you to send annotations regarding the text to the doctor who dictated the letter. This should be used where you cannot understand a section of the dictation. This annotation function should only be used rarely, in exceptional circumstances, and the notes sent to the doctor should be concise, consisting mainly of just: 'I did not understand the word that you said at this point'. At no time should the annotation function be used to send any messages not directly relating to a a specific dictation. '
'Frequently asked questions:
What is the 'Add Notes' function and how do I use it?
Use the 'Add Notes' function where there is a part of the dictation that you do not understand. There will be parts of the dictation that are unclear, but please use this function to indicate this (with a comment in the box such as 'I did not understand the dictation at this point' or similar), as opposed to putting question marks or a line of dots in the transcript. If you are unsure about the spelling of a patient's name please use the 'add notes' function to draw attention to it.'
Nowhere can I see any information about typing notes to secretary/office notes in the 'add notes box', in this this guide or in the contract that you have to sign, so it looks like this has been stealthily added at a later date post-contract.
I remember having to sign another contract at a later date, but I think that was regarding patient data protection due to the new laws.