So, here's something to consider.
I use flags to configure things in my code so I don't have to hard code it or manually write stuff in memory. Examples:
1. Flags to say "don't move into this room"
2. Flags to say "build N creeps of type M instead of the calculated default"
3. Flags to say "remote harvest/reserve/repair/build in this room"
4. Flags to say "improve my walls/harvesters to N in this room"
And a large variety of other configuration things.
I don't think I've had more than five flags in a room, but I can see that 100 flags will not be sufficient. We'll need a good UI mechanism to configure the code systems without having to have a huge amount of non-GUI configuration.