Use the KPI Performance Metrics for "Enterprise Portfolios" Business Application Portfolios fall under "Enterpise Portfolios".
However, CSDM relationships and guidelines apply here. Business Applications ARE NOT Operational CI's. So you would not be targeting those CI's as for ITSM processes. Business Application performance as it relates to availability is pulled up from the Application Service. So first be sure that you are getting the expected results at the App Service and then work your problem up. Is your App Service and Business Application have the correct CSDM relationship tying them together?
