Am I missing something here. I was also able to recreate this (bug/feature)
Running SU 2026 opening same file from same location 2 different ways results in 2 different workspaces being presented.
#1
Run SU 2026 via desktop icon. Using Open File from device (from inside the app) my file loads but my workspace doesn’t display as last used, only 2 toolbars loaded and none of my custom trays load.
#2
Navigate to the same file via Windows Explorer and double-click the file. SU 2026 loads and opens the file. Workspace presents as expected, all toolbars are loaded and my custom Trays display in same configuration as last used.