Pretty sure that happened because of how those skystone formations generate into the landscape, it doesn't account for thin and tall spires.
Eheh, yeah I know that it just happened because an AE meteor happened to fall on a spire. It just looked really goofy - like it had fallen from space and, instead of hitting the ground and making a crater like usual, it impaled itself on a spire. I sure hope that can't happen to your base if you have a meteor deflector, but I don't know; they are from different mods.