System Cracker is similar to the hacking levels in Sly 2 and Sly 3, the player controls a similar avatar. Levels have changed in the manner that there are multiple avatars that all have different abilities and objectives.
Shell Code - always starts the level. In order to get past some firewalls, you need a data-key which only this code can take.
Panzer Code - is slower than others, but it has a strong turret, which is needed to destroy stronger crystal-like firewalls or specific locks.
Speeder Code - is weaker then others, but is the fastest one and is needed in order to shoot around corners against tough security or to activate specific locks, by creating an ring around it.
Alter Ego changes the formula. The player controls a muscular Bentley with two guns. Player must destroy enemies and obstacles while levels progress. At the end there is always a large enemy as a boss battle. Bentley's avatar can power up by collecting ion bits.
Spark Runner has the player control a spark, and in order to move it, they must tilt the controller to use the Sixaxis. If the spark falls down from the platform, the level is restarted. There is a timer, but the player can add two seconds of time for every clock pick-up they grab.