AkatsukiEmpire

I have checked the science parts for the building microbiomes and the "flying low over" works for them too. All you have to do is press the run experiment button (or put them all in an action group) right when the craft touches the ground. The only things that worked for it was the Crew report, Temperature scan and Atmospheric analysis. The EVA report works as well.

I was standing on the base of the pole (the square thing) and I jumped and clicked the EVA report button. It seems to only work right before the Kerbal hits the ground otherwise it would be "flying over shores". It also works with other microbiomes (VAB south complex for example). I haven't tested the other science parts. I tried doing it with the surface sample button but it disappears straight away. This works with all of the new launch sites too.

In 1.12, the new launch sites are their own biomes. Also, the structure micro-biomes might have the "flying low over" as well.