Binocular depth perception only works out to about 5-6 feet (~2 meters for the rest of the world). "Depth perception" is based on much more than the spacing between your eyes. There is a story of Wiley Post demonstrating that at landing distances even moving from crouching to standing tall had no change on what distant objects looked like. He flew for years with one eye...
The advice above re: AOPA is good. You can also google then email Bruce Chien, MD. He's got a good reputation for problem medicals and is good about answering email. I have a special issuance, and Bruce gave incredible advice on making it work.
The advice about seeing an AME for advice is good, too. You can explain your concern and ask for a "physical that's just like a second class medical..." Life only gets complicated if you fail a physical.
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Just to be pedantic, in FAA-speak it's a Commercial Pilot Certificate, not a license...
Good luck!