The Ju88 bomb bays work, let me explain.
The 88 has manual bomb controls (the bombardier had to turn a crank by hand), there was no motor to open them by pressing a button or moving a lever.
Like any other hand-driven control in the sim (for example the flaps on the 109), you need to keep pressing the button to simulate the pilot turning the wheel by hand (and also for the anthropomorphic controls difficulty setting to track it, if it is enabled).
If you only have the "toggle bomb bay doors" command and you press it once, the game doesn't register a continuous input and the co-pilot will not turn the hand-crank all the way to open.
So, the solution is to go into options and assign separate commands to "open bomb bay doors" (for example, alt+O) and "close bomb bay doors" (for example, shift+O).
Then, if you press alt+O and keep it pressed, the co-pilot will keep turning the crank and the doors will open all the way. After you release bombs you press shift+O and keep it pressed, the co-pilot will turn the crank in the opposite direction and the doors will close.
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