An engine system includes a stop-start module that generates a shut down signal to shut down an engine. A friction module that generates a friction signal based on the engine shut down signal. The friction signal indicates an estimate of a sum of friction forces between components of the engine. A position module estimates a position of the engine and generates a position signal. An energy module estimates kinetic energy of the engine based on the friction signal and the position signal. A cylinder deactivation module stops the engine based on the kinetic energy in at least one of (i) a predetermined position and (ii) a predetermined range.