If you have the Low-Level Missions add-on module, the first decision you must make is to choose your type of mission, medium level or low-level, and if you choose low-level, should you use what will be called "RAF Tactics" (minimum level to the target and then climb to medium level in the target zone) or bomb from minimum level up to 4000 feet. You can choose or let the dice decide for you.
Then you can decide to continue the mission or abort if your fighter cover does not appear.
Over the target if you don't find the aim point, you can either go around for a second bomb run, break off or go to the secondary target. With some improvisation you'll be able to change the altitude, ie., descend to get below the clouds. (I have thought about adding a rule for this, but that will have to wait.)
When fighters attack, some might be "non-attackers." You can decide to fire at them, with the risk of jamming your guns, making an ace quicker, spending ammo which may be more useful later or let him pass to attack your friend (because he has his sights on another ship, or has been fired upon by another bomber and is breaking off...) (Here's an idea that just now popped into my head: If you don't fire at this "non-attacker" will he fire at another ship, and that will be reflected by rolling on MT-1c, formation casualties? If the result is 9-10, one leaves, this bandit has shot down one of your ships. I think that I have found a house rule that I will use from now on.)
In a low-level attack you can drop all bombs at once or drop some on several attack runs. You can strafe, but should you do it with all of your guns or just one or two? Load bombs in the main and aft bomb bay? Load your A-20 or A-26 with rockets also?
You can choose if you want to bomb by flights or by boxes.
I am sure that there are more decisions that you can make. Please help me out here. I also have ideas on topics that I would like to include but have no room for in the Core Game.