These dark spots may be hyperpigmentation as in the case of moles or they may be fungal infections. You have noted some scaling or flaking. The flakes may be evaluated microscopically so that a fungal infection may be ascertained. Also, I would suggest that you have this assessed by a dermatologist. If these are moles, a thorough physical examination by a dermatologist may be necessary.
Do not pick on these spots and protect your skin at all times. Wearing a hat and applying sunscreen on the face may help.