No matter what you do, bigots will go out of their way to find people they don't like to harass, no matter how small the percentage is.

Another reply suggested all genders (cis and trans men and women and nonbinary) compete together, and/or removing rankings altogether, each person just decides how well they feel they did in the context of all runners. Do we really want to twist ourselves in a knot and make it harder for anyone but cis-men to have the highest scores, just for the appearance that we aren't appeasing TERFs? Many people are interested in being competitive in sports, so deliberately sidestepping the wedge issue without proper solutions doesn't seem tenable to me.

My suggestion was to keep a women's leaderboard, then slot every trans and non-binary person that competes there as tied with the closest cis-female competitor they scored with.