What's the deal with the Align tool flipping/orienting bodies bizzarely?

Half the time when I try to align bodies-- even if I add a construction plane parallel to the face I want to align to-- Shapr flips the part I want to align upside down, or backwards, and then I have to flip it to where I want it. And not all the time either-- sometimes it works fine. Why does it do this? It makes no sense.

So frustrating.

Are you using the flip gadget that appears during the alignment process? It looks like this.
Screenshot 2025-01-23 at 1.54.45 PM