Installing 12.08b1 I see some strange interaction between the fuel-tanks and the engines,too.
After some try-and-error I re-installed the Mu-2-module and tested with the 4- and 5-blade-OEM-version. Lua-scripts or alternative acf-files to manage fuel and passengers were not installed / used.
I started with 100% in main-tank #3, empty wing-tanks #2 and #4 and 100% in tip-tanks #1 and #5. What's strange:
a) the engines get the fuel from the tip-tanks #1 and #5, later the right-hand engin