And everyone will have a different "annoying feature" on top of its own list.
Quite true. And for every requested feature there's at least one person who will complain about it if I enable it by default.
As for the commando stuff, I'd have to look into the whole sabotage logic to see where to change stuff. Timing related things are generally hard to change since I have no idea what the original values are. It's probably easier to make it not spawn infantry, like in RA. Making that an exception on single player level isn't hard, once I know what I actually need to change.
The top of my annoying list is the sound of the guntower/apache machine gun.
I've been studying how to create a personal AUD file with a lower noise or different noise, so.
That's not hard... using XCC Mixer, open sounds.mix, find Gun8.aud, then Copy as WAV (PCM)
. Then open the wav file in Audacity, go to Effect -> Amplify, and set it to -6 dB or something like that, and save as WAV again. Then, use the same Copy As technique to convert it back to AUD.
I think you can just dump the sound in your game folder, without it needing to be inside a mix file. Not 100% sure though.