The article doesn't care how you use the OpenSSL commands; it's concerned with code you write that might need a CSPRNG. If you're writing code, don't use OpenSSL's CSPRNG.
Sorry for all the questions. I just want to make sure I'm doing it right and I suspect I'm not the only one that is confused by the article's assertions.
As for keys: it depends on the kinds of keys you're generating. If you're building on OpenSSL's primitives --- which, don't --- it'll be hard to get an RSA key without invoking the OpenSSL CSPRNG. But it's not at all hard to avoid OpenSSL's CSPRNG for AES.
My project depends on bitcoin-ruby, which uses OpenSSL's EC_KEY_generate_key to generate keys. EC_KEY_generate_key, as far as I can tell, uses OpenSSLs internal PRNG. If I understand you correctly, this is unsafe and it would be better to derive a key from urandom.