This work outlines a procedure for identifying brain structures not affected by prevailing global brain deformations. Such information may provide useful constraints for morphometric analysis methods used to measure neurodegenerative disease. The method proposed combines a global rigid registration and a localized block matching approach to analyze serial deformed images. Deformations from neurodegenerative morphological changes in tissue were simulated using a two dimensional finite element model based on porous-medial physics. Success of the registration/block-matching algorithm was determined if undeformed regions could be identified uniquely. Results indicated an ability to identify undeformed areas in five generated test cases. However, there were significant false-positive areas within the results which need further research to overcome.