You must have an idea if you are compatible with someone if you are already seeing him. Astrology can't answer everything. But since both Gemini and Aquarius are air Sun Signs, you are both intellectually curious and like to keep busy and get bored easily.
The Moon represents emotions. The Virgo Moon may be critical, but likes stability and is reliable and sensible. Virgo is also a sign that bores easily, but will do the job anyway. The Scorpio Moon person is more emotional, but keeps some of that inside. Scorpio Moon people are loyal to those they like or love and are intense. Both the Aquarius sun and Scorpio moon are fixed signs, so this is a stubborn person who wants their own way, and won't be swayed. The Gemini Sun provides excitement, but if the Virgo Moon guy nags or clings too much, it's going to have to be worked out.
But it's still OK, see how it goes for a while, and if there are issues, talk about them. The Aquarius Sun/Scorpio Moon person would be the one to walk away first if they got bored. Good luck.