I have a save file that shows an example of the behavior I am seeing, and a brief video showing it in action. In the save, I use just this mod and Blueprint Sandboxes. Behavior inside sandboxes is just like in a normal game surface, so it saved me a lot of time to construct things with it.
As best as I can describe the behavior is this--once I set down enough factory buildings and have things nested inside them, at a certain point, laying down blueprints inside a building causes a lengthy freeze/stall of the game. And not just laying down blueprints, using the deconstructor tool to mark a ton of entities also causes the same stall for me. The more entities affected by the operation, the longer the stall.
Example save file is here: https://factoriobox.1au.us/map/info/4dc8d795a41535fc3ebc920ac9cdb047b60c16480a8da123e543c8b74feb51c4
Video demo: https://youtu.be/4IOx6jhI2do
In the video, I start with a set of prebuilt factory buildings. I then start by laying down a test blueprint outside of a building several times to show how quick it is. Then, I go into one of my buildings, go down into a set of nested buildings, and place down the same blueprint. The game stalls, letting the mouse move around but nothing is functional. After that, things pick back up and the game continues. It doesn't seem to cause any harm, but I do wonder if it might cause issues in multiplayer (haven't tested that).
Anyway, thank you for this mod. Even with this behavior, the performance gains I've seen from using it make it more than worth any annoyance. Excellent work, man.