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After surviving an atomic bomb and watching Cortana's death, Master Chief goes back to earth to UNSC headquarters and is welcomed as a hero. He goes back to the laboratory where UNSC made him the spartan he is, gets stripped of his armor and is officially retired from duty...
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In The beggining, when he was just trained, several people doubted his ability to survive in combat because of how little and skinny he was but they were wrong. After he became war-hardened he became the greatest Spartan in the UNSC and he recieved the code of Spartan 1107, then went missing in action.