Bspsource, aw, such a great tool, but I was ondering how to make it with all the instances and not collapsed.
It also removes some indicator lights, kinda annoying.

Instances are only a Hammer thing, they don't exist in any meaningful state in the compiled map. BSPSource tries to detect instances and make visgroups out of them but it's an approximation at best.

Wow such a shame...

Lock please.