1. Fuel Transfer: The fuel transfer lockup bug is still very much alive. Sometimes it can be fixed by changing focus between every single transfer, sometimes by warping.
2. Ore harvester and drills often stop when the mining complex on Gilley (see photo) loses focus to another ship somewhere. This was also happening with a refinery/miner on the Mun. It's basically impossible to produce meaningful amounts of fuel unless you want to keep the focus on the miner for around 24-48 hours.
3. My mining landers-- 4x Refinery, Refueling Lander, and Storage Farm---have wheels so that they can traverse overland after landing and dock, so that no separate mining truck is needed. On Gilley, they can't get any traction, which might be understandable. However, they also sit a couple of meters above the ground after landing, so that they roll around and are difficult to keep upright. I eventually settled for traversing to the refinery and docking with the RCS thrusters, using SAS and reaction wheels to keep them from rolling upside down. Once docked, with the landing legs extended, they seem to sit on the ground. They still jump off the ground when the focus switched to the docked complex, which should be bug 4., I guess. Oh, and 5., the fueler has been sucked underground once, which also happens on Minmus regularly. Had to edit it back into existence.