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My background: I have half of my extended family is LDS (Latter Day Saint for those who don't know the acronym). I also grew up in a small town that was 95 percent of the LDS faith. This will be probably one of the most difficult things you can try to integrate with your life.

My 2 cents:

You will not be Temple worthy. Being removed from the fellowship is possible. Your family will not take this well at all; I love my extended family, but there would not be a positive outcome from announcing i am an atheist. I know that there are wonderful people in the LDS faith, but there is some serious elitism and gossiping. Just listen during a fireside/stake center/family gathering when the topic is about someone who is not deciding to CTR (Choose The Right) philosophy (or from outside the faith). It is pretty condemning, even though it sounds blanketed in good intentions. What were the discussions you have heard growing up from someone from the outside marrying into the Mormon faith? The short story is that your family will probably accept him, but guilt trip you and undermine this with their goodwill.

Offtopic: I know that those who are Temple worthy baptize themselves for those unable or ignorant about the "faith" who have passed on, but i believe this to be offensive to those who held their own beliefs in life as strongly as you hold onto yours. Would you be okay to be Islamic and have someone else decide you chose the wrong faith and had to save you?

Resume topic: If/when you have kids... what is the message to them? You both should have a clear agreement on how you would raise them, and you should get that figured out or else the mixed signals will cause contention in the household. Will he be attending the church functions? Will your family try to convert him and will that make him shy away from family gatherings? I am going to skip the creationism arguments as those have already been addressed in this thread probably.

>I try and do everything I can for him, because if he's happy, I'm happy.

I think this is dangerous if it was meant as a maxim. I agree being supportive is good; but if you base the happiness of yourself (and your relationship) on the other person... you will suffer greatly. If this turns out badly the only thing left is resentment and unhappiness. Both of you should be happy and fulfilled on your own terms and compliment each other. Any bad habits/parts of each other need to be accepted in full (except self destructive behavior like addiction or anger issues).

You don't sound like a jack Mormon and not a molly Mormon either, so it seems you will probably let this sink in over a while. The guilt you feel about the trip is about you bending your own moral code right? It is your body and your choice to do this when you feel ready; it shouldn't be about trying to please two things at the same time. You need to know where in the sand you draw your line, you don't have to consult the golden tablets for that bit of advice. You will never please everyone, and giving a little to everyone is cheapening the intent imo. It is awesome to see you here in this subreddit and trying to gain perspective about his views, that is very admirable. Honestly, this post is about you as much as him and, your background matters. You are a culmination of your past, as is he.

Find your boundaries and stick with them. If you feel guilty it is for a reason, and you need to come to terms with what that is/means. Guilt and shame go hand in hand; religion instills this very very deep. I would like you to take a thought experiment. Just ask yourself "why do i believe this" during the course of your normal day when you encounter things you would normally agree and disagree with; then keep drilling down like a five year old asking 'why' 50 times. It doesn't necessarily have to be religiously related... but it will be eye opening. Go make a throwaway account and then ask r/Mormon the opposite while posing as the boyfriend to see what they say (add in the heavy petting part and you will see some fire come out). Have you met his family, and have they accepted you?

If you want to understand, i am going to leave this here. It is a blog post about why atheists are angry. This isn't meant to show you the position of your boyfriend, it is meant to show you how people will possibly react to knowing he is an athiest. If you search this sub-reddit you will find many stories about those who chose to open up to their family and there reactions. Imagine how your family would react if you decided to become an atheist. Because that is basically what he is up against, no matter how much you love him. Try this book if you want, it helps with some perspective/communication issues. I hope you gain some constructive perspective from this.