Also are you using the correct plastigauge?
Spec is 0.0008-0.0021 in. for production and 0.0008-0.0025 in. for service.
Looks to me that you're not reading the plastigauge correctly. For instance, for a 0.002 reading the squashed portion of the plastigauge should fit completely inside the red section of the 0.002 area. The 0.003 reading should fit completely inside the white portion of the paper gauge.
On the package of plastigauge it should have a working clearance printed on it, do you have that handy?