This has some fantastic setpieces that were a joy to see, particularly the opening church with all the slanted windows, and the bits with the floating bricks/archways. I also love the use of colored lighting on the red windows, and that you did the func_door trick with the rising zombies.
There were a number of things that could have been ironed out with playtesting, however - such as lingering prototype textures, areas that you can unintentionally see through, odd use of clip brushes that prevent the player from going places they should be able to reach. On the latter point, one of Quake's strong suits is its fluid movement, so constraining that with invisible walls usually isn't the way to go. The map can also be sequence broken quite easily. That being said, I hope you make more maps, because there were some really cool ideas and structures in this one, and I'd love to see more!