Good news. Stone can be refinished just like wood. A stone professional can come in and buff up those tiles and reseal them. You want to try your best to stick with the stones that are already laid. Once you start pulling up stones, you risk MORE DAMAGE to the surfaces of the other stones. And you run the risk the stones will not sit flush with the others. And you would still have to remove the toilette and put back in = same issues as before.

Please take a room shot so that we can see the overall install as well as the overall LOOK of the scratches. Believe it or not, the best option might just be to leave it be.

Once you have loaded the room shots, feel free to reach out to a stone company to ask them about the cost of a fix.

Oh...the other thing: the trades people probably thought these floors were porcelain so they may not have taken the care needed around a black stone. Did anyone tell them the floors were stone and that surface damage was possible?

The tile installer is running the job. I would imagine he would know that’s it’s stone?

Shots of room

OT, but cool stone. Saving the thread for future reference, and for a good advice received

As annoying as this is, the fix could be worse than the oopsa. Black stone is notorious for showing 'white' scratches. Especially a product that is equivalent to marble. The high limestone/calcium content of travertine/marble is what turns a scratch white.

The room looks completely intact. The stone looks amazing from a standing position. Only on the 'hands and knees' inspection angle can you make out the issue. I would hesitate to ask for a do-over at this point. It will most likely make things worse. Much worse.

As for the "tile installer is running the show", is s/he a General Contractor? Are there other subs involved? Is the tile setter a plumber?