Seems very much like a she said, he said article. Having been though customs literally hundreds of times and declaring food much of the time I actually side with customs on this based on the information in that story.
Ticking your form is simply telling the officer you have one of more of those items. It's then up to you to tell them what they are, and what they contain. She did fail to declare she had honey.
It seems in some ways to be an argument about semantics. She ticked the box and when asked to clarify she said she had some natural remedies. When asked to show she produced the honey. She is saying the honey is part of the natural remedies, Border Security are saying honey is it's own category and needs to be declared on its own not part of a larger definition. Maybe is she had verbally declared food and showed honey she would have been ok.