The "Smart Inserters" module patches unconditionally any inserter it finds (this is bad, I will reach out to the author). There is another mod that creates "bioluminescence" versions of each inserter that is as bad, but as you had many modules enabled, I spent no time figuring out which that is.
What happened with the loader you stand next to is that somehow it got desynced (some mod deleted and re-created) from its internal state. You can spot this by opening its GUI; the normal miniloader should open the "loader1x1" GUI which is small. This miniloader opens an inserter GUI which also has the "smart inserter" submenu attached. Unlike a normal miniloader, pressing the "R" key actually rotates the miniloader (not just flip directions).
Deleting and rebuilding the loader worked for me, so there is something that grabs an arbitrary inserter and "rebuilds" it. I don't know what that is and at first glance the smart inserter would only do that in very specific circumstances:
- on_gui_opened fires
- miniloader_redux sees the event first, closes the inserter gui, replaces it with the loader gui
- then smart_inserter sees the event, closes the loader gui, adds its own custom gui
- somehow making changes in the gui destroys and recreates the inserter that is representing the miniloader
or it might be something completely different. There are so many mods loaded in that save that I would first need to figure out what could cause this.