GoDaddy really lived up to its bad reputation and recently changed their API rules. The rules are simple: either you own 10 (or 50) domains, you pay $20/month, or you don’t get the API. I personally didn’t get any communication, and this broke my DDNS setup. I am clearly not the only one judging from what I found online. A company this big gating an API behind such a steep price… So I will repeat what many people said before me (being right): don’t. use. GoDaddy.
Domain.com sounds like a domain registrar. You would keep that service and point your name servers for the domain to the ClouDNS name servers.
I hate to bother you with another question, but what is the goal of changing the name servers I have with domain to another? Could I just use ClouDNS for everything? I wish I had taken more time before I bought the domain through Domain.com. It seems like everybody likes ClouDNS.
Transfering a domain from one registrar (IE reseller) to another can be a pain, but yes you can - it normally involves a fee and manual actions from the registrars.
As long as the new registrar supports the TLD. A few Geo-TLDs can only be resold/managed by some registrars.
The easiest thing to do is to point the domain at ClouDNS nameservers.
Make sure you are happy with ClouDNS (I’ve never had issues with them) etc before committing