Integrating Letsencrypt with Cloudflare ON, manually. Possible?

You can’t import certificates to Cloudflare except on the $200/month or Enterprise plans.

If you don’t want a shared SSL, you can pay for a dedicated (but unexportable) certificate: https://support.cloudflare.com/hc/en-us/articles/228009108-Dedicated-SSL-Certificates

Your question might be better served by https://community.cloudflare.com/

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