Never mind, I found the problem.

As with the vanilla JF-18 I'm running on my XP machine I set the compatibility option on the F18.exe for Windows98, that fixes the music stopping playing in the menu (It was also the fix for the same issue in Jane's F-15 for me).

But as it turns out it messes up something that's being made by worldswapper with the single missions. As soon as I removed the compatibility option from the F18.exe the correct missions show up in the single mission menu for the Iraq campaign.

When you select Iraq in World Swapper, it changes the missions folder from Mission to IraqMission. Whatever missions are in your IraqMission folder will be available for selection in-game. You do not need to copy any built-in missions from one folder to another.

When you download missions (from the VFA-41 website, for example), it is critical that you place them in the correct folder.

Does the World Swapper modifies the F18.exe while switching theater? I'm wondering, because I don't understand why the compatibility option applied on the F18.exe has influence on the fact that the right missions will show up in Single Mission menu?

Thanks again for your help Rhino

I'm not an expert on how the sim or TSH is programmed, but I don't believe that it does. It should merely point the sim to different locations for the map and for the missions. If it needs to modify f18.exe to do that, I don't know.

This problem I have seen before. The reason you can't see the missions, is because the folder holding the missions doesn't have the right permissions for the game (f18.exe) to see them. I'm pretty sure that changing compatibility mode on a .exe file changes the permissions. The World swapper does make changes to the registry pointing the f18.exe to a different mission folder depending on what world you select. From the TSHv2 readme "Once a theatre is selected in the swapper, the following registry entries are modified to point to either the Iraq folder or the Ncape folder". Try giving the worldswapper.exe and TSHv3manager.exe the same compatibility mode that you have set on f18.exe. You might check the Mission folder and Iraqmission folder permissions as well.

I don't know what version of windows you have issues on, you mention XP and win7-both handle permissions differently. Installing the F/A-18 Full Install to TSHv3.06 to the root of C:\ will probably make all the permissions equal on the folders and files.

I'm not able to even install it with Win7.
What can be the problem...?

This thread still helping in 2023