UPDATE:
I think I resolved the canonical issue. It seems it was a conflict with the SEO Tools module in Jetpack. Upon disabling that, my canonicals are now showing up as www.
If anybody else is having this issue, here is the direct link where you can access all your Jetpack modules in one page:
https://www.[yourdomain]/wp-admin/admin.php?page=jetpack_modules
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This reply was modified 4 years, 9 months ago by empress7dg.