Initial infection can sometimes present with fever, body aches, etc but those wouldn't be the only symptoms you'd have. You'd also show symptoms genitally. Like Grace said, this is likely just a run-of-the-mill cold or sinus issue.
So these aren't the early signs?
your symptoms sound more like a cold than they do anything std related.
protected sex is a risk for syphilis, herpes and hpv. have you had your gardasil shot series yet? you can test for syphilis after 6 weeks post encounter and herpes after 3 months if you need peace of mind.
grace
Herpes is not transmitted through fluids, so whether he finished inside of you or not is irrelevant.
Your symptoms do not sound like herpes. If you had contracted herpes through genital sex, you would show some symptoms genitally. If you continue to feel poorly, be seen by a doctor.