This topic is a little touchy for me. I am genderfluid; sometimes I identify as female, sometimes I identify as male. So I get to experience a whole range of frustrations and understandings that cisgendered people do not always seem to grasp.
My interactions with various deities are kind of like this as well. Of course, it depends on the deity in question. Some are very, very male. Some are very female. But the ones I deal with the most, kind of fall in the middle. They prefer one expression, but contain the other within them as well. The whole strong boundary, strong division thing is kind of lacking.
So, I respect their wishes when I interact with them. If they express themselves to me as female even if they are traditionally seen as male in lore, I go with that, and vice versa. It is not a big deal for me, if someone prefers one or the other. Even face to face with physical people, sex is not usually the first thing I notice about a person.
I tend to see the Universe’s energy as being every possible gender at once, as well as no gender at all. So it just makes sense to me that individual deities would show the various expressions to some extent as well.