Joining the bandwagon, or so...
First, all Gods I have heard of have some gender associated with them. Even the Christ is a... was a male human, right?
Female:
Fire Queen. Queen, no explanation needed.
Elidnis. I made her, I know.
Destiny. Usually portrayed as a woman weaving, or so, so there.
Miracle. Not sure why, but I've always thought it is so.
Rainbow has enough variety to be androgynous or something.
Dark Matter is... matter, something not exactly being something to which gender can be applied.
I can't really decide where do I want to associate Divine Glory, as it both sounds female and not.
Hermes is male as of Greek mythology.
Morte, and all embodiments of Death in English, are male.
Chaos Lord is a lord.
Incarnate does indeed sound male.
Ferox prolly comes from ferocious, and as such I'd rather male. Also, I know a Rox who is male.
Graviton... I think of him as a man, and the ruler of a giant planet also called Graviton, where the Mercenaries and Fire Eaters come from to fight in armies.
Gemini are two men.
Seen Paradox on TV and he was he.
Scorpio also male, even though it's hard to associate gender to such animalistic beings.
Obliterator is not Obliteratess. -ators are male.
Seism is also male, large, ground shaking and such.
Tell me if I forgot anyone.