Your mixed up with the use of half orbital. When iron become to $\ce{Fe^2+}$, it needs to donate two valance electrons away which is at the highest energy (orbital 4s$\ce{4s}$). So, that is why we write $\ce{Fe^2+}$ as 1s2 2s2 2p6 3s2 3p6 3d6$\ce{[Ar] 3d^6}$.