Came in here to say exactly that.
I'm guessing that you're enlisted, so your PT score is going to have a direct influence on your rate of promotion. Remember, lifting is awesome but you want to keep your priorities straight. It's a lot easier in my opinion to maintain a good run time at a lighter body weight and slowly work your way up than the reverse. This isn't to say that you can't lift, get stronger and get your run time down at the same time but I would really caution you against gaining 20 lbs in the process.
5/3/1 is great because you can easily adjust the intensity. If you just did a 10 mile ruck in the morning, your squat day might not be so hot so you can pick your battles. The Big But Boring template works really well for dips/pushups/pullups as well.