I understand why they can't trigger waypoints, but I agree that it would be nice if they could interact with objects/holes.

Some of them are pretty nice. For instance, you can use the cat to gather people into one spot. Gimblebock, as an example, and his crew. A cat familiar can go under the stone block and meow, calling everyone over. Then you can shoot the rope and drop the block, killing all four enemies at once.