In Altera® DSP Builder 8.1, the MegaWizard® purges files related to the MegaCore® whether or not any changes are made to the settings of the core. This includes simply verifying the parameters of a MegaCore block. This problem affects all MegaCore blocks in DSP Builder 8.1.
The work around for this error is ensuring that if any MegaCore block is open in the MegaWizard, that the Generate button is pushed rather than just closing the MegaWizard window. This problem has been fixed in future versions of DSP Builder.