Yeah there are a couple of spots in the yard that aren't so weathered but most of it would tear right up, might be tougher than a karate chop but can certainly be compressed. Yes, they are compressing everything that'll be touching the underlayment, and any bad spots they said they'd use some of the sand.
I've asked them to is planting pockets at the edges in some areas, the way I asked though was for them to pull back the liner further from the edge then have rocks in front and back, some should be in the stream as well as the backside of the pond, in front of the retaining wall.
I wasn't thinking about using pots though, my wife doesn't like the lilies cause they grow all over, so I wasn't going to use them but if I understand what you are saying a pot would help control them from spreading?
I really appreciate all the input!