My initial thought was that it would make sense to have one set of tag team titles, that allows teams to be of any gender and of mixed genders (so 1 male/1 female, 2 males, and 2 females). The problem with that would likely be that it would be dominated by male tag teams as they would consider the females to not be as resilient.
As for a merge with it being only mixed genders (1 male/1 female), I would be worried about the female competition being token offense and still mostly focusing on the males.
As a result, I don't think it would be a good idea - but it could be that the regular tag titles have no restrictions anyway. This is all in general as I haven't seen TNA in quite a while, but if EY is one half of the Knockout Tag Team Champions, I don't think that he should be for too long, otherwise it could lower the legitimacy of the titles.