CS50W does not use cs50.me so you shouldn't expect to see it there. Is there something in the course information/materials that mentions using cs50.me? If so, can you let us know where so we can remove that? I'm guessing you assumed it did since CS50x does?
CS50W has no formal grading. If you are going for a verified certificate, you are required to submit all assignments. You can verify that you have done so by visiting your submit50 repo (to see your code submissions). You also should receive an email confirmation for your form/video submissions.
Once you have completed all assignments, we'll let edX know that you are eligible. I'm not sure of the timing of certificate issuance.