Your transom is now structurally complete. All that remains is to tie your transom into the stringers using stringer splices. (This assumes you are not also replacing the stringers of your boat). Epoxy glue into place wood stringer extensions which match the thickness of the core of the stringers. Grind back at a beveled edge the fiberglass covering of the existing stringer stub. Repeat the epoxy fillet and tabbing procedure used to tab in the transom core, being sure to overlap the old stringer by at least 6". The stringer is also tabbed to the new inside transom skin. Use the same 12 oz biaxial tape for the stringer tabbing. After the tabbing, you will wrap the entire stringer spice (overlapping up the old stringer) with enough heavy biaxial cloth to build up to at least the same thickness as the skin of the original stringer.
The boat is now ready to be put back together. While the structural aspects of the rebuild are the same from boat to boat: marine plywood, epoxy, tabbing, cloth, etc..., each boat design will be a little different in how it should be taken apart and put back together. You do not necessary have to follow the same procedure as the example in this tutorial. In the case of our example boat, the owner simply epoxied into place the cut out portion of his motor well. Butt blocks epoxied to the underside of the parts were used to make a lip for gluing the two edges of fiberglass. Using epoxy fairing compound the joint was then faired out smooth.