Hi Shelley! If you are talking about not stitching around the fused applique, I would NOT recommend skipping that step. I don't do much fusing, but I think that eventually, whether the quilt is laundered or not, the edges will come loose, especially if it's a quilt to be used rather than hanging on the wall.
If you are talking about quilting across fused (and secured) applique, I think that's fine.