After a hair tearing out session I was finally able get all of the low level lighting patterns on to one large ATtiny2313 chip (17 outputs)
Here is my lighting plan (according to my current voltage, I can put up to 2 LEDs on one LED output)...
2 rows of Landing lights in each bay will be made from fiber optics connected to 9 LEDsEngines
both Landing Bays will be lit with warm white light, with an optional red lighting for Battlestations.
Each main engine outlet (3 main engine outlets) will have up to 2 steady white LEDs and 2 flickering low power blue LEDsWindows
Cruise engine (1 small engine outlet) will have 1 steady red LED and 1 (or perhaps 2) flickering yellow or orange low power LEDs
All windows should be able to be lit from fiber optics connected to 1 large warm white LEDBattle Damage effect
each area of battle damage effect will contain 1 steady red LED and 2 or more fading in and out orange/Amber LEDs
Done 1 LED output Warm White for window light
Done 1 LED output Red for Battlestations light
Done 3 LED output for steady White engine light
Done 1 LED output for steady Red engine light
Done 1 LED output Red/Green blinking Nav light (1 sec on, 1 sec off
Done 9 LED outputs - Chaser for the Landing Bays