What mobile phase are you using? It depends on exactly which compounds you are talking about. I used to do work on a fungicide that existed as a racemic mixture. The mobile phases were acetonitrile and water, but adding 10% methanol to each was enough change in selectivity to separate them.

I believe that such compounds should be very different, and given this evidence is very likely that you can solve the separation by crystallization (solid and liquid) or hot solvent extraction (leaching) to liquid liquid.