Not sure if this is related... I left several stoves in my world cooking whole stacks of cobblestone (i.e. loaded with 64 cobblestone and 8 charcoal each). When I started up the world today, each stove had cooked only about half the cobblestone AND all the fuel was gone (so the cooking process could not start back up when I re-entered the world, which is what normally happens). This world is a single-player offline one and no one has been home to prank me... so, it's got to have something to do with a bug (maybe triggered when I entered and left the nether before leaving the world - NB, I never save and leave the game in the nether) or when I reset the nether today before loading). Your gold farm is in the nether? Anyways, I've reported it on the bug tracker. You may want to add yours to the bug tracker as well.
No, my gold farm is in the overworld but I had recently been trying to get more wither skeleton heads though not that particular time. I know only a few
things that had happened. I was going back to my base and a creeper blew up on me, saved afterward, it was wierd the explosion left a cross in the dirt.
Went back home picked up 2 stacks of dirt and saw I needed more food... Then my chests were empty, all of them. I will report it to the official
thread once I figure out what the cause is but so far it hasn't happened again. I can't seem to duplicate it.
I only have a few guesses as to what caused it but I am unsure. My first guess is a temporary memory leak. That seems to be the most likely.
The two bugs may not be related then. Pretty sure mine had something to do with my timing in entering the nether since that is a point in the game that shuts down overworld activity (in a single-player environment). Normally the stoves shut down and then restart on their own when one comes back into the overworld. In this instance, however, the "memory" of the fuel became lost and so the stoves could not restart... leaving me with varying amounts of cobble left over in each stove and no fuel. I don't know if this could be caused by the program not returning free RAM to the system (i.e. there was no lag involved that I can remember). Since I never save myself inside the nether, I return to the overworld and then do the save and exit... perhaps I was too quick and the "memory" of what had been going on with the stoves was not fully loaded for restarting when I saved and exited the game.