A marker pen storage system comprising a housing having a plurality of receptacles for receiving marker pens, each receptacle formed to include an upper and lower cavity, the upper cavity located at the opening of the receptacle and formed to include a first upper inclined section and a first lower inclined section, wherein the first upper inclined section has a greater incline than the first lower inclined section, said lower cavity sized to receive a writing end of a marker pen, receptacle openings are formed immediately adjacent so as to create guidance walls between each receptacle, and prevent a flat upper surface from being formed between adjacent receptacles, and a snap ring formed between the upper and lower cavities, wherein a relatively airtight seal is formed around the writing end of a marking pen when it is completely inserted into the lower cavity so as to prevent circulation of air to the writing end of an inserted marking pen, and the snap ring produces a snap feel and sound when a marker pen is completely inserted into the lower cavity. Guidance walls between the receptacles enables a user to properly insert a marker pen without having a direct line of site to the proper receptacle, thereby making the marker pen holder very easy for young children to use and put away the marker when it is time to clean up. Also, the snap ring prevents markers from spilling out of the holder, which is very useful when marker pens are carried in children's backpacks to and from school or the like.