My take on it is that time didn't matter in the alternate timeline (to me it was what Christians consider Purgatory with the caveat of remembering one's death shows they have gone full circle as a spirit and may progress to the true afterlife) rather than just in the church. On that same vein the line by Christian, "[You created this together so you would have a place to meet and remember]," was in regards to the church itself rather than the entire planet/existence/plane/universe.
I think of it this way (this is the message I took from it) - the entire show is a microcosm of life, we have mysteries that can never be solved yet we, as humans, continue to see those answers until we either give up or subscribe to faith. As such, we have very vague answers to seemingly endgame questions: what is the light source? What is the MIB's name? Who came before Jacob's mother? You can view these in regular life: where does life come from? Does God exist? If yes/no, who or what came before us? Lost, at it's core, is about Jack's journey from being a lost soul to completing his destiny and taking the next step into the unknown. Going back to the church, if you believe that Christian meant the friends made the church and not the entire alternate existence (so they could meet once again), you may do the same as I just did with the unanswerable questions. People create and harbor relationships, we forgive and love, we hate and despise. Through doing this we forge intense relationships, share and develop ideas, and create theories that bind or separate us. The church is a metaphor for that. They created a Christian temple so they could congregate together as friends and people who shared the most important time in their lives together and then step into the beyond and complete the life cycle.
At the end of the day, Lost was about the relationships and development/redemption of certain characters; Jack in particular. We saw his life develop and change, his time as protector of the Island and his progression towards fulfillment and entrance into the after life. The people who miss this and get hung up on the minor mysteries are missing what lost was about; life - and you don't get all the answers here either.
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