OK. I posted your pictures. I'm not sure what to make of them.

A black liner with no pattern is going to make such surface defects more visible. But since it's a purely visual defect, rather than a functional one, I imagine that the contract you have with your contractor is likely to determine your options.

I don't know if that's acceptable work in your area, or not. I do know -- purely from having swum in a number of vinyl pools -- that such surface irregularities are common in my are. But you don't see them, usually, with a patterned liner.