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The greatest secret about the Alpha Legion Primarch is apparently told to none outside the Legion, and has always been thus. For, unlike any of the other Primarchs, Alpharius has an identical twin: Omegon. It is unknown if the Emperor designed this, or was ever even aware of it. Alpharius and Omegon are both the Primarch of the Legion, although 'Alpharius' is the public face and appears as the more senior of the two. Though as both are identical it is possible for them to switch roles and have 'Omegon' play the public role. At least once 'Omegon' appared before the small court of Horus instead of Alpharius, that had appared the last time to the court{{Fn|5}}. They have been described as "one soul in two bodies" and collectively have been referred to as simply "Alpharius Omegon"{{Cite This}}.

While the Astartes of the Alpha Legion, once at least, made an attempt to all look alike, both Alpharius and Omegon were still somewhat distinctive. Taller than the rest of the Legion, slightly copper-skinned, bald and possessed of a heavy brow, they somewhat resembled their brother, [[Horus]]. Unlike him, Alpharius and Omegon had piercing eyes that seemed to glitter, appearing to shift colour from a cold arctic blue to a shimmering green. The overall impression was one of nobility and intelligence. One way to tell the two apart was when Omegon was performing as commander of Effrit Stealth Squad; large portions of his [[power armour]] and gear were painted black and otherwise darkened. The armour worn by Alpharius was not particularly different from that of an ordinary Alpha Legionnaire.{{Fn|1}}