A pet carrier assembly, including: a cage housing adapted to selectively contain a pet; and a lower litter pan adapted to be selectively coupled to and removed from a bottom portion of the cage housing; wherein bottom portion of the cage housing includes a waste grate that forms at least a portion of a floor of the cage housing and is selectively disposed within or adjacent to an interior portion of the lower litter pan with the bottom portion of the cage housing. The pet carrier assembly includes a solid removable floor disposed in the bottom portion of the cage housing and adapted to cover the waste grate, and a seal disposed about a periphery of the removable floor. Optionally, the lower litter pan includes a cut away operable for providing access to an interior portion of the lower litter pan.