A system and method of implementing distributed metadata checkpointing in a storage device. A storage device is disclosed that includes storage device that employs distributed metadata checkpointing, including: flash memory; and a controller that collects metadata checkpoints and includes: a checkpoint partitioner that partitions a metadata checkpoint into a set of segments; and a segment loader that stores each segment of the set of segments into a spare region of a corresponding different flash memory pages during a write operation of data to flash memory.