Didn't Stardock have png support way back in the day? Png support for an app like Start 11 should have been featured before the beta came out. Png support would take this app to a whole new level. I would love to see the things people would make to customize their Start 11 especially if it's easy to do. But, as it is I think I ended up with something pretty cool.
Anyways, boy was it a pain to set it up with this way. I learned that I could make shortcuts out of Windows Apps by using Run "shell:AppsFolder" and right-clicking "Create Short", then just change the icon of the app on the Desktop. Expect, this doesn't work with every app on Start 11. This Window App shortcut method works with Windows 11 Start, Explorer, and Taskbar but some apps show up as their default icon when pinned to Start 11.
Start 11 also does not like custom shortcuts that are "Internet Shortcuts". I would also imagine that this affects HTTP shortcuts that have custom icons. The problem I was having was with Steam/Ubisoft games. Adding a Steam shortcut to your Desktop creates an "Internet Shortcut". Luckily, I just made shortcuts out of the exes, which worked even if Steam or Ubisoft wasn't running in the background as programs just launch with the exe.
I also heavily modified the Programs folders, both of them, to have a clean [All apps]. I found out if you delete those folders they will come back, but if you hide them they will be also hidden from Start 11. So I made shortcuts out of those hidden folders and stored them in another folder I could access easily later on down the line. I copied all the apps I wanted out of both folders, made sure there were no duplicates, cut all the apps out of the AppData/Programs, hid all the folders, and placed everything in the ProgramData\Programs folder.
I added my custom icons to the apps in the ProgramData\Programs folder, went into [All apps], and then right-click to "Pin to Start 11". When changing icons in the ProgramData\Programs you are going to have to restart Explorer. I recommend making a "Restart Explorer.bat", and placing that under "Shortcuts List".
Launch Notepad, save as "Restart Explorer.bat"
taskkill /f /im explorer.exe