First of all get all of your diagnoses made and treated, your children will be needing you as well as possible. Get into counseling to understand the relationship, yourself, and what you can do for your children. It helps to have an objective individual to assist you. The best thing you can give your children is a happy, well-adjusted parent.   

Second, get the children into counseling so they can understand what's going on with the BPD spouse, themselves, and the interaction between you and the ex-spouse. Particularly because of genetic influences you need to look for signs of depression, ADD, anxiety or the BPD in the children.