I found out the reason strange things were going on with my server. The file system went read-only. I was working on a sky scrapper so I didn't really leave the area. The stuff I've been working on is still in running memory, but it just can't save the data. The server was running in the root file system and I've tried to "mount -o remount,rw /" and it's not working. I thought I would be creative and mount a different partition on top and see if I could get the save data (mount -o bind /home/minecraft /data/minecraft) but that simply didn't work
Is there any possible way that I can get the server to save it's world data to a different location? I'm doing my best to not lose a lot of work that's still is hanging out in memory. Is there some way to HUP the process so it knows about the new file location?