Hello Andrew,
I assume you are considering the impact of flash on nocturnal raptors, ie owls etc. My experience photographing nocturnal birds is mostly restricted to my garden where I have photographed Powerful Owls and Tawny Frogmouths. I use manual flash control and have used a Better Beamer when long-range shots are the only option otherwise I see no significant difference between using a standard flash at shorter range and a Better Beamer for long-range shots. Regarding the impact on the birds, I offer the following observations.
The accommodation response of the birds I have worked with is extraordinary. For example, Powerful Owls and Tawny Frogmouths have pupils that close and dilate in a matter of seconds. They can also control the pupil aperture independently so that if you shine a torch on one side of the bird's face, it will quickly close down the pupil aperture while leaving the opposite pupil (in shade) wide open. The birds seem to be quite unconcerned by the torch light and look around for prey as if in darkness. They fly from a perch that is in torchlight to seize prey with uncanny accuracy. I see no adverse impact on hunting and feeding behaviour.
A few years ago I decided to get a red LED torch believing this was 'safer' to use for spotting and photographing nocturnal birds. It works OK but there is a potential problem. When you illuminate a nocturnal bird with a red light it usually leaves its pupil wide open so when you fire the flash the bird's retina gets the full impact. I decided it was better to use a white light LED which caused the bird to close down the pupil to something like daylight adaptation. Then the flash pulse would be no different to using fill-flash on a bird in daylight.
Cheers,
Ian