AFAIK CC was mouse based, no keyboard needed except for save games or just space and enter + cursor keys... Could be wrong..
IIRC you could setup the stockpile in the map screen or the "resupply map", I still have the game both Amiga and PC versions just no Amiga to play it on and no ADF of it.. Never bothered to get this running on XP, tho I loved this game way back then...
I just saw a new RTS from lucas games, PC offcourse, Star Wars; Empire at war.. Sounds like a good replacement for Carrier Command