No. Your Waffy account is one system with two access methods: the web portal and the API.
Anything your system creates through the API appears immediately in the web portal because both are connected to the same system.
If your company uses the API, keeping the web portal available alongside it is essential, not optional. It is the layer your operations team uses to manually handle cases that require human intervention, such as a disputed contract or an exception that your system cannot handle automatically.