I want to try to help you.
So i have deinstalled my Deep Island installation on my Win 10 today to look what problem that could be.
I deleted all, also the regestry.
I have inlaid the first CD (UruAges beyond Myst) in my PC.
Installed in a seperate filepath = C:\ Deep Island
After it was ready, i have take the second CD (Myst Uru-The path of the Shell) inlaid.
After it was ready, i opened my Deep Island folder.
I droped the unpacked Deep Island -Patcher in this folder. (Four files)
Then i clicked with the right Mouse button on Uru.exe and run it as admin.
No problem to see .
My second PC is a Win 7
There i have problems with Uru.exe
It do not run.
So i tryed the UruSetup.exe. Again right mouse button, run as admin.
After i do this, no problem.
Sorry that i can not help you better.
I have some fotos of my installation in Win 7. Maybe that helps.