Exactly. When Apple shipped the first Intel Macs without Boot Camp, there wasn't outrage that Windows/Linux couldn't boot; People that cared just didn't buy them. Just don't purchase a computer that has been crippled by the manufacturer.
It will still be possible to build your own computer - OEMs will only bother to certify entire systems, and bare motherboard sales won't be affected by Windows Logo Certification since the class of users who build their own computers don't even notice marketing programs like that.
It's also likely that many, perhaps even most, certified systems will offer a means to disable or customize the secure boot functionality. You can disable Computrace, TPM, and Intel ME on virtually all machines that ship with them. This should be no different.