redstone and water stops running

After a while after restart, redstone stops working and/or water stops running and becomes stationary of a kind. I have 60 plugins, and i think its something with ticking garbage rate in bukkit.yml, but not sure. Can also be Craftbook? It happens usually after running with or without players online, after 6 hours.

 

Does this also happen without plugins? If not, it's a plugin issue.

 

I am convinced its a plugin issue, but i need to find which one.
I have a stupid bug with craftbook, making a npe exception at server startup, but author can do nothing about it, as its a malplaced sign somewhere. This will take forever to find out where.
I really doubt, that its not possible to make craftbook type out the lokation of this.

 

Remove all your plugins, then check the server each time you install another plugin and restart. Probably a good to whitelist your server if you need world guard to protect areas while you do this. And yes, its very time consuming when you have a lot of plugins.