Stacks replaced with question marks. Why?

I made several stacks with Apple and 3rd party applications. After the mac was awakened from sleep mode, the stacks were replaced with question marks. Anyone know why? and how this can be avoided?
Thanks

I finally figured out what I was doing wrong. I listened to the Apple Rep. He told me to make a folder on the desktop, put in the aliased apps and put it as a stacked folder on the Dock. Wrong!!! This folder has to be made as a subfolder of the Documents folder. Then this folder holding the aliased filed is dragged to the Dock. The reason is simple. Whatever folder is made on the Desktop and put on the Dock as a stacked folder leaves a copy on the Desktop. When this is Trashed and the Trash bin is emptied, so is the stacked folder. By dragging it from the Documents folder, nothing is left on the Desktop.

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