Miner is in Ores Mode by default so that it doesn't wreck as much when you place it down while it has energy.

//oh lovely workarounds

src/main/java/ellpeck/actuallyadditions/tile/TileEntityMiner.java

@@ -35,7 +35,7 @@ public class TileEntityMiner extends TileEntityInventoryBase implements IEnergyR
     public static final int ENERGY_USE_PER_BLOCK = 500;
     public EnergyStorage storage = new EnergyStorage(1000000);
     public int layerAt = -1;
-    public boolean onlyMineOres;
+    public boolean onlyMineOres = true;
     private int oldLayerAt;
     private int oldEnergy;