Hello and welcome to the forums NomDeKeyz!
When dealing with the PCA and PCW (acronyms for the assistant and the wizard), there is a certain rule of thumb that i usually employ; that is, to keep it simple.
When a program has been installed to completion, and you know it has because the Installer itself quits normally without having its own error message, it generally means it's properly installed. So yes, option 2 is the right one in 99.999% of the cases. (These steps refer to dealing with the PCA)
The PCW on the other hand is invoked when you select the Troubleshoot Compatibility option in the right click menu of a program's executable.
Changing/Modifying a program's compatibility options AFTER the installation is a very simple matter.
To reiterate, it just involves right clicking on the programs executable (the exe file that launches the file) and selecting properties, and then going to the Compatibility tab
Select the options you require, apply and you're good to go!
Hope that helps!