I don't know what I am, exactly - not an atheist, but not too comfortable with conventional ideas and mythology around religion. I'd feel out of sorts if someone suggested Liam was in a place called 'heaven', or that his injuries and death were at the expense of some being's 'plan'. I feel like those are easy, pick-and-choose sentiments that allow the speaker to wash his or her hands, to feel like they've neatly said what they think they're supposed to say. It doesn't rub me the wrong way, necessarily - it just feels foreign, as you said - like clothes that don't fit. I simply wouldn't say it that way.
It's taken me a long time to give other people permission to say the wrong thing - sometimes terrible things. Religious or not, that's one thing about babyloss that seems universal, the world's sudden and widespread foot-in-mouth syndrome.
----
I had twins at the same gestation as your son, one of whom died after six weeks. The other, although he was smaller (2 pounds even), is a normal, thriving little boy - so everyone calls him my miracle.
Which begs the question, just as you point out: what, then, was Liam, his twin who died? Technically, medically, Liam was just as miraculous if not more so, given his injuries.
So yeah, I hear you. 'Miracle' is perhaps the word of religious origin that makes me squirm the most of all. 'Pray' I can also read as hope, energy, vibration, love. 'Miracle' can only point to God as an interventionist - or rather, as a being who chooses if and when to intervene.