Sorry. I was in a panic just now.

All of them are references.

I do not know how I got to this point. All I did was add an extra blend shape node to the original file. I have several Maya files using the same reference files and all of them are fine except for this one. I'm using IK rig. Yes I scale it but I did that at the beginning before animating anything. No it was like this for the whole file. The picture only shows the control curves. The control curves moves and it still preserves the key frames.

For some reason the mesh went back to its original state even though when I click on it the key frames for the blend shapes is still there. Looked at the channel box too and realized the inputs/blendshapes are all gone.

I'd checked the joints too and it's in the scaled size. Only the mesh...