A method has been developed for repairing a cartilage lesion. The method includes bringing a three-dimensional porous substrate into direct contact with prepared bone. The three-dimensional porous substrate is fixedly coupled to a three-dimensional scaffold such that the substrate supports the scaffold. The three-dimensional porous substrate comprises at least three layers of woven fibers. The substrate is configured to be inserted into bone tissue including cartilage lesions such that the substrate and the scaffold replace the bone tissue including the cartilage lesions. The substrate and scaffold are further configured such that after the substrate and the scaffold have replaced the bone tissue including the cartilage lesions, the substrate and scaffold promote growth and integration of new bone tissue into the implant.