As I have tried to mention but perhaps failed to make clear: you absolutely CANNOT use the original remote and expect the Bond to know of it. It does NOT “listen” in the background for OEM remote signals. Not for Lights, not for Fans - so original remote signals cannot update the Trust State. It is frozen at whatever the Bond Bridge last sent / knew itself to have sent.
That’s why I, and others in the community, do use the Track State feature but put original remotes in a drawer and never use them. We then turn to Home Assistant, ISY, SmartThings, HomeSeer, etc to integrate NEW remotes / keypads (Z-Wave, Insteon, Zigbee, Logitech Harmony, etc) to control exclusively through Bond API links for any physical buttons desired. This also allows for Bond-linked voice assistants to stay in sync. Recently, the Bond team even created a new product line (Bond Bridge Pro + Sidekick Scene remotes) to have more physical control options.
Alternatively, if you toggle off the Trust State feature, your Bond Bridge will only ever send Light Power Toggle commands whenever it is requested to be either turned On or Off (the same as will always be the case with Fan Power, since Fan Power is not a part of Trust State no matter if it is enabled or not).
This is acceptable to some folks as they only ever voice command Lights or Fans in rooms they are occupying, and no other devices / groups in that room (unless explicitly by name), so they’d know to say Turn Light / Fan On / Off by nature of it being the opposite of what they can perceive to be the current state.
To many others however, be they users of Routines or commands such as “turn all lights on/off” or "turn all ____ room lights on/off, are absolutely not okay with Bond not knowing the state a light was last in because if a Hue lamp bulb, for instance, was on while the Bond Bridge-linked ceiling fan light kit was off, a voice command to “turn off all living room lights” would turn off the Hue bulb and turn on the ceiling fan light kit.
This is indeed a very frustrating aspect of ceiling fan receivers by most manufacturers, and one which Bond can try (if you only ever use Bond and never the original remote) to circumvent, but cannot truly solve.
There are also ceiling fan manufacturers including a type of remote+receiver, or a very few aftermarket receiver / remote kits (only usable on AC motor fans, not DC motors), which license Smart by Bond integration — which bypasses the need for a Bond Bridge and lets that special kind of receiver directly connect to WiFi, use the Bond app and all the integrations / API options available to it, and give discrete Light Power On and Light Power Off commands, as well as Fan Power On and Fan Power Off.
One of the Bond staff mentioned some of this in this post.