Is there a trick or work around for all the stones that disappeared yet?

[medea_fleecestealer]

Starting anew is all you can do. From the v0.7.5b hotfix notes:

@Zantai

Fixed an issue where rocks could not be harvested and saving and loading a town in this state would cause all rocks to disappear. Unfortunately, this fix is not retroactive for any towns that already had their rocks vanish.