Hello Janne,
Your pkg file have files which belongs to free (Basic) version of plugins.
I couldn't reproduce problem here using plug-in set provided for you. This is project files/Wizard setting related problem or plug-ins aren't properly copied.
Can you :
check that you have copied all files from zip we provided, into rsc-folder you have defined in "KL Path" field.
check this field in KuneriLite wizard UI:
"KL Path" -> Points to your plug-in set, rsc folder: example \my\KL_xxxxxx\rsc
verify that you have installed 0.9.7.1 tool from kunerilite.net
You can also re-create new project just in case.
Im quite sure that problem is some of above

Cheers,
jukka