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So after finally getting Armada to work without crashing at the first sign of a major battle I went ahead and installed the Project Armada mod along with the 5.03 patch.

It works great! There's one issue though that I've noticed....

When I used to play this game way way back the game was relentless with the AI sending wave after wave after wave of enemies (this was particularly the case with the Klingons). We're talking HUGE chunks of red blocks suddenly making their way across the map and me trying to hold them off at all costs. I had to set it on easy just to give myself a chance! So I was looking forward to that challenge again but this time the game was fairly tame. The difficulty was set to medium and it's like they give up after a while and they only build like 5 ships at a time. I could try playing on hard but I have my doubts that will change anything.

Is anyone familiar with this mod and/or what could cause the AI to just... stop? Is there a setting that can be changed to make them more aggressive?
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Alex_Bales: So after finally getting Armada to work without crashing at the first sign of a major battle I went ahead and installed the Project Armada mod along with the 5.03 patch.

It works great! There's one issue though that I've noticed....

When I used to play this game way way back the game was relentless with the AI sending wave after wave after wave of enemies (this was particularly the case with the Klingons). We're talking HUGE chunks of red blocks suddenly making their way across the map and me trying to hold them off at all costs. I had to set it on easy just to give myself a chance! So I was looking forward to that challenge again but this time the game was fairly tame. The difficulty was set to medium and it's like they give up after a while and they only build like 5 ships at a time. I could try playing on hard but I have my doubts that will change anything.

Is anyone familiar with this mod and/or what could cause the AI to just... stop? Is there a setting that can be changed to make them more aggressive?
I used to mod this game (and Armada II). Modding the AI is very difficult and tedious, because you have to test each change a lot in-game. But the mod would just overwrite the AI-files even if GOG did change those, so they're not the problem. My guess is GOG changed the RTS_CFG.h file in the game's main folder (you can open that with Notepad++). If it's anything like Armada II you can easily give the AI more teeth by changing stuff like the AI_SPEED_HANDICAP and STARTING_DILITHIUM, while AI_GRID_SIZE has an influence on how the AI implements what's in the AI files.
That does sound like a good idea except this mod comes with a replacement RTS_CFG.h file, so I'm guessing those settings are right where they're supposed to be. Still, I'll take a look and see if I can change it up without breaking anything!
There's a lot of things that can cause the ai to be very tame.

If ai personality files are changed to de-emphasize attacking.

If ai run out of any resources: dilithium, crew, officers.

If the ai cannot build an item in its build list, then it wont move on to building things farther down the list.

If the ai cannot build fast enough to advance down its build list, before the assets it already has are destroyed. As far as I can tell, in order for the ai to build the next thing in its build list, it must currently own ALL of the things that come before that item in the list. For example, an AI that suicides all of its ships might not own enough ships to build things farther down its build list.