A relative had this happen. They had someone come in a mine for coal. When the coal was mined their well went dry. Now the company has to bring in water for them all the time. Even though the company pays for the water is it reasonable to think the company may go out of business some time and then they will have no water?
Plus when they mine for coal, or suck out gas or oil they leave a hole in the ground. Over time that hole can collapse. Out west somewhere there is a town that is literally falling into the ground from mining in the 1800's.
Personally, I would not buy a place that I did not own 100%. That rules out duplexes as you do not own half of the house. If the other owner lets his half fall into the cellar from neglect what can you do? The same thing applies to lost mineral rights. If you give them away and someone sucks your well dry, digs ugly holes, strip mines, or sticks oil derricks over all of your land what can you do? NOTHING!!! they have the rights.
You could potentially never have any issue with this in several lifetimes. So it is in reality a non-issue. But what if 1 year from now they come in and mess up your land? What do you do then?
If I wanted the place I would say I buy it, but that is ALL of it, Mineral rights included. Take it or forget it. Then be prepared to walk away.
Just things to think about.