the thread seems old, however if you or others who may still experience the same problem, here is my solution: I've had this problem not on Shepard, but on NPCs, mostly the crew members in the Normandy. The newer versions of the mod "ALOT" (A Lot of Textures) for Mass Effect 3 made extra tweaks to improve graphics on the GamerSettings.ini located in the Bioware user folder (C:\Data\User Data\*USERNAME*\Documents\BioWare\Mass Effect 3\BIOGame\Config). I first thought that the mod itself was the issue, but upon further investigation I could locate the issue was caused from the tweaked settings, so it wasn't the actual mod. I could fix this issue by removing the Texture Tweaks for Characters and Shadows, as well as by disabling DepthOfField (which I don't like anyway, but I am not sure if DepthOfField actually was triggering the issue for me). So I suggest to check your GamerSettings.ini file and remove the following lines, if they're written there (you may want to backup the file before):
TEXTUREGROUP_Character_1024=(MinLODSize=2048,MaxLODSize=4096,LODBias=0)
TEXTUREGROUP_Character_Diff=(MinLODSize=512,MaxLODSize=4096,LODBias=0)
TEXTUREGROUP_Character_Norm=(MinLODSize=512,MaxLODSize=4096,LODBias=0)
TEXTUREGROUP_Character_Spec=(MinLODSize=512,MaxLODSize=4096,LODBias=0)
MaxShadowResolution=2048
MinShadowResolution=64
ShadowFilterQualityBias=2
ShadowFilterRadius=5
bEnableBranchingPCFShadows=True
DepthOfField=True
Upon removing the lines, I couldn't really notice any graphical differences, even the shadows looked the same to me, however the problem with the broken textures/meshes on the NPC faces vanished after that though, so I wouldn't care less about the settings as long as the problem was gone. Even though this response comes late, maybe it helps to other people who may encounter into this issue. Cheers