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I can confirm the download works on windows 11
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Karl_Maliff: I can confirm the download works on windows 11
Can you send the link that you used?
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Karl_Maliff: I can confirm the download works on windows 11
Looking to clarify if youre referring to matty the mad's fix download or the 1.2.5 patch
I tried this process again for giggles.

1st with Matty's fix -> no luck
2nd with patch project -> no luck
3rd with matty's, then the patch -> no luck
4th with the patch, then matty's -> no luck
5th with matty's, then patch 1.2.5 with alternate instructions -> no luck

Preceding each attempt was a full uninstall, then a redownload from GOG

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Karl_Maliff: I can confirm the download works on windows 11
Another BUMP. This worked for me as well. GOG needs to add these registry changes or make it easier to find the solution.
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woody188: Another BUMP. This worked for me as well. GOG needs to add these registry changes or make it easier to find the solution.
Seconded. Thus was the game I wanted more than any other in the GOG library and it's the game that I cannot play. Extremely disappointing. Plus, the responsiveness on the forums appears to be zero. I have never seen a mod weigh in and I have not seen changes made based on user feedback.
recently got this, they seem to have implimented the registry fix as default these days, but it still doesnt work, menus still borked, cant navigate them either as the mouse pointer doesnt line up with the menus if i can even see them, how is this being sold when it basically doesnt work and needs luck or magic to get it working :(
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MattyTheMad: So you can move your mouse, hear sound, but graphics are frozen? Tabbing in and out updates the screen?

You didn't click the "launch" button on the installation complete dialog maybe? That's when it set up the compatibilities for me and how I discovered this fix.

First quick solution, then a description for the tech savvy and DIY peoples.

[QUICK FIX]

(1) download "Armada2.cmd" from
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MattyTheMad: (2) Place "Armada2.cmd" in your "Star Trek Armada II" folder
(3) Right click Armada2.cmd, "Run as administrator"
(4) Play the game! You're done!
(5) It should be working now, you don't need to be here anymore

[FOR TECH PEOPLE]

File source can be seen here without downloading:
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MattyTheMad: Playing with the registry can be dangerous, so I'll just tell you what's done, not the steps to do it.

Compatibility settings can be found in the registry at:
HKEY_LOCAL_MACHINE\SOFTWARE\Microsoft\Windows NT\CurrentVersion\AppCompatFlags\Layers
and
HKEY_CURRENT_USER\SOFTWARE\Microsoft\Windows NT\CurrentVersion\AppCompatFlags\Layers

We change the value of "D:\<Your Install Path>\Star Trek Armada II\Armada2.exe" from "DWM8And16BitMitigation" to "HIGHDPIAWARE"

The game really doesn't like "DWM8And16BitMitigation", deleting the registry key may also work, however the working game default appears to be "HIGHDPIAWARE", so I stuck with that.

[THE FILE]

If for any reason the web site link is down, copy everything after this sentence into a text file and save it as "Armada2.cmd"

echo off

::
:: Matty The Mad
::
:: answermatty.com/Armada2
:: You use this file at your own risk and hold the author responsible for nothing
:: To use, place in Armada 2 folder, right click, Run as Administrator.
::

REG ADD "HKEY_LOCAL_MACHINE\SOFTWARE\Microsoft\Windows NT\CurrentVersion\AppCompatFlags\Layers" /v "%~dp0Armada2.exe" /t REG_SZ /d "HIGHDPIAWARE" /f
REG ADD "HKEY_CURRENT_USER\SOFTWARE\Microsoft\Windows NT\CurrentVersion\AppCompatFlags\Layers" /v "%~dp0Armada2.exe" /t REG_SZ /d "HIGHDPIAWARE" /f

@echo,
@echo answermatty.com/static/armada.cmd

@echo,
@echo Hi, I'm Matty The Mad, this should help get your menus working
@echo,
@echo Place this file in Armada 2 folder, right click this file, Run as Administrator, try to start the game
@echo,
@echo,

pause

[HOW I DID IT]

I reinstalled several times, watched for all changes to the disk and registry, tested playing the game before and after hitting the "Launch" button.

It didn't work before launch, it did work after. There were a couple of registry changes, I found the ones that made the difference.

[HKEY_CURRENT_USER\SOFTWARE\Microsoft\Windows NT\CurrentVersion\AppCompatFlags\Layers]
"D:\\GOG\\Star Trek Armada II\\Armada2.exe"="HIGHDPIAWARE"

[HKEY_LOCAL_MACHINE\SOFTWARE\Microsoft\Windows NT\CurrentVersion\AppCompatFlags\Layers]
"D:\\GOG\\Star Trek Armada II\\Armada2.exe"="HIGHDPIAWARE"

Before hitting launch, it seems to be = "$ DWM8And16BitMitigation", or something similar.

Since everyone's folders are different, I wrote that script to make it simpler for people without tech skills.
I’m having this issue on my steam deck, however I have scoured my deck for registry files to manually edit and can’t find them. I downloaded and installed the game thru the heroic game launcher on SteamOS, so I’m not sure where my registry files for windows might be. I can get into the main menu of the game but the Cursor won’t line up with the menus. All the fixes I have found have been windows specific, didn’t know if you might have any tips for a steam deck