I have an ACAD.lsp that sets some sysvars, loads an updating program, loads another LSP to clean out junk files (.err, .dmp, .tmp) from the drawing's active directory, and loads a reactor for putting xrefs on a particular layer.
The user got the error message after AutoCAD was already opened. He clicked on an icon and that message showed up at the command line. He closed AutoCAD and the message came up again - it doesn't appear to have done anything harmful.