I have found that stone fixed with flexible adhesive and not rapid set lets the polymer content work its way through the stone to surface along with the water in adhesive.
the water evaporates and leaves a slighlty furry residue on top of
tile and replicates the dabs on underside of
tile or whatever bed underneath.
You may think that the adhesive is still wet but it should have dried through within approx one week on average limestone.
the result looks terrible but is usually easy to remove with a soap based claener like wexa.
I have had to remove these marks numerous times in my restoration business but equally have had to clean stone i have solid bedded thathas taken on a mottled look.
you do not get this problem with rapid set that pulls the moisture within itself.
15 years ago the polymers in some very well known brands of adhesive were almost impossiblle to remove from moleanos or similar but the adhesive manufacturers have learnt from this and much easier nowasdays.