Not possible. Logistics bots fly in a straight line from their location to their destination, they don't pathfind, especially not across surfaces, and even if they did pathfind there'd surely be no way to add custom routes using mods. You'll need a separate logistics network inside every factory building.
The same goes for trains. Trains do pathfind, but there's no way to add nonstandard paths (such as surface-changing ones) using mods.
